PaperBLAST
PaperBLAST Hits for SwissProt::Q96DC8 Enoyl-CoA hydratase domain-containing protein 3, mitochondrial (Homo sapiens (Human)) (303 a.a., MAAVAVLRAF...)
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>SwissProt::Q96DC8 Enoyl-CoA hydratase domain-containing protein 3, mitochondrial (Homo sapiens (Human))
MAAVAVLRAFGASGPMCLRRGPWAQLPARFCSRDPAGAGRRESEPRPTSARQLDGIRNIV
LSNPKKRNALSLAMLKSLQSDILHDADSNDLKVIIISAEGPVFSSGHDLKELTEEQGRDY
HAEVFQTCSKVMMHIRNHPVPVIAMVNGLAAAAGCQLVASCDIAVASDKSSFATPGVNVG
LFCSTPGVALARAVPRKVALEMLFTGEPISAQEALLHGLLSKVVPEAELQEETMRIARKI
ASLSRPVVSLGKATFYKQLPQDLGTAYYLTSQAMVDNLALRDGQEGITAFLQKRKPVWSH
EPV
Running BLASTp...
Found 250 similar proteins in the literature:
ECHD3_HUMAN / Q96DC8 Enoyl-CoA hydratase domain-containing protein 3, mitochondrial from Homo sapiens (Human) (see 2 papers)
NP_078969 enoyl-CoA hydratase domain-containing protein 3, mitochondrial precursor from Homo sapiens
100% identity, 100% coverage
- function: May play a role in fatty acid biosynthesis and insulin sensitivity.
- ECHDC3 Variant Regulates the Right Hippocampal Microstructural Integrity and Verbal Memory in Type 2 Diabetes Mellitus.
Zhao, Neuroscience 2024 (PubMed)- GeneRIF: ECHDC3 Variant Regulates the Right Hippocampal Microstructural Integrity and Verbal Memory in Type 2 Diabetes Mellitus.
- Genetic Regulation of Enoyl-CoA Hydratase Domain-Containing 3 in Adipose Tissue Determines Insulin Sensitivity in African Americans and Europeans.
Sharma, Diabetes 2019 - GeneRIF: Genetically (cis-) regulated expression of adipose tissue enoyl-CoA hydratase domain-containing 3 (ECHDC3) and genetic silencing studies in a human adipocyte model suggest that ECHDC3 may play an important role in determining insulin sensitivity.
- Transethnic genome-wide scan identifies novel Alzheimer's disease loci.
Jun, Alzheimer's & dementia : the journal of the Alzheimer's Association 2017 - GeneRIF: Genome-wide significant (GWS) associations in single-nucleotide polymorphism (SNP)-based tests (P < 5 x 10(-8)) were identified for SNPs in PFDN1/HBEGF, USP6NL/ECHDC3, and BZRAP1-AS1.
- The relationship of the oleic acid level and ECHDC3 mRNA expression with the extent of coronary lesion.
Duarte, Lipids in health and disease 2016 - GeneRIF: Increased levels of monounsaturated fatty acids, especially oleic acid, and ECHDC3 upregulation in patients with coronary artery lesion suggests that these are independent factors associated with the initial progression of cardiovascular disease.
- Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression.
Hendrickson, PloS one 2010 - GeneRIF: Observational study of gene-disease association. (HuGE Navigator)
- Integrated Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC) and Isobaric Tags for Relative and Absolute Quantitation (iTRAQ) Quantitative Proteomic Analysis Identifies Galectin-1 as a Potential Biomarker for Predicting Sorafenib Resistance in Liver Cancer
Yeh, Molecular & cellular proteomics : MCP 2015 - “...P05091 P32119 Q02252 P28332 P55809 Q15493 P35527 Q96DC8 Accession number Regucalcin Keratin, type I cytoskeletal 9 Enoyl-CoA hydratase domain-containing protein...”
Q3MIE0 Enoyl-CoA hydratase domain-containing protein 3, mitochondrial from Rattus norvegicus
82% identity, 99% coverage
LOC118271967 enoyl-CoA hydratase domain-containing protein 3, mitochondrial from Spodoptera frugiperda
52% identity, 82% coverage
- Genome-Wide Identification and Expression Profiling of Candidate Sex Pheromone Biosynthesis Genes in the Fall Armyworm (Spodoptera frugiperda)
Qu, Insects 2022 - “...specific acyl-CoA dehydrogenase, mitochondrial XP_047020249.1 Helicoverpa zea 0.0 89.97 Enoyl-CoA hydratase (ECH) (-oxidation enzyme) SfruECH1 LOC118271967 278 NC_049725.1 8,995,073 8,998,854 enoyl-CoA hydratase domain-containing protein 3, mitochondrial-like XP_035444142.1 Spodoptera frugiperda 0.0 100 SfruECH2 LOC118277211 343 NC_049733.1 10,231,633 10,237,455 putative enoyl-CoA hydratase AID66686.1 Agrotis segetum 0.0 77.42 SfruECH3...”
- The Transcription of Flight Energy Metabolism Enzymes Declined with Aging While Enzyme Activity Increased in the Long-Distance Migratory Moth, Spodoptera frugiperda
Fu, Insects 2022 - “...and One hydrogen is removed from each carbon atom to form -enolyl-COA. [ 47 ] LOC118271967 Enoyl-CoA hydratase ECH Catalyzing trans alkenylacyl coenzyme A to produce -hydroxyacyl COA. [ 47 ] LOC118272083 3-hydroxyacyl-CoA Dehydrogenase HOAD Catalyzing 3-hydroxyacyl coenzyme A to produce -ketoacyl-COA. [ 36 ] LOC118265763...”
XP_022822615 enoyl-CoA hydratase domain-containing protein 3, mitochondrial isoform X1 from Spodoptera litura
52% identity, 82% coverage
CG6984 uncharacterized protein from Drosophila melanogaster
45% identity, 83% coverage
- Using Drosophila to identify naturally occurring genetic modifiers of amyloid beta 42- and tau-induced toxicity
Yang, G3 (Bethesda, Md.) 2023 - “...by which causal genes affect susceptibility to disease. Four of our suggestive genes ( kuz, CG6984, bru2, and CG40006 ) represent Drosophila orthologs of well-accepted risk factors in European populations (ADAM10, ECHDC3, CELF1, and SCARB2, respectively). ADAM10 is an alpha-secretase with a role in processing the...”
- Altering enhancer-promoter linear distance impacts promoter competition in cis and in trans
Bateman, Genetics 2022 - “...Two additional small protein-coding genes were not analyzed (CG6984, encoded between GstS1 and Sply, and CG46492, encoded within an intron of CG46491), and an...”
- Reduced Function of the Glutathione S-Transferase S1 Suppresses Behavioral Hyperexcitability in Drosophila Expressing Mutant Voltage-Gated Sodium Channels
Chen, G3 (Bethesda, Md.) 2020 - “...UAS-RNAi transgenes ( CG8950 , GD36069; CG6967 , GD27769; CG30460 , GD40624; CG8946 , KK105752; CG6984 , GD21650; GstS1 , GD16335) were obtained from the Bloomington Stock Center (Indiana University, IN) and the Vienna Dr osophila Resource Center (Vienna, Austria), respectively. GstS1 M26 was obtained from...”
- “...53F4-53F8 region: CG8950 , CG6967 , CG30460 , CG8946 ( Sphingosine-1-phosphate lyase ; Sply ), CG6984 , and CG8938 ( Glutathione S-transferase S1 ; GstS1 ) ( Figure 3A ). To identify the gene(s) whose functional loss contributes to the marked suppression of para Shu phenotypes...”
- Alkaline Ceramidase Mediates the Oxidative Stress Response in Drosophila melanogaster Through Sphingosine
Zhang, Journal of insect science (Online) 2019 - “...proteins in related with hydrolysis activity Gene names Annotation Fold change P value Molecular function CG6984 Enoyl-CoA hydratase 1.68 0 Enoyl-CoA hydratase activity CG40160 Serine protease 0.66 0 Hydrolase CG9311 Protein-tyrosine phosphatase 0.64 0 Hydrolase activity CG1014 Adenosine triphosphatase 0.61 0.003 Hydrolase; motor protein CG11909 Glycoside...”
- The Wolbachia cytoplasmic incompatibility enzyme CidB targets nuclear import and protamine-histone exchange factors
Beckmann, eLife 2019 - “...0.021 CG17271 33 Q9VDI5_DROME 0.30 10 7 0.095 Alas 59 O18680_DROME 0.29 10.7 6.3 0.043 CG6984 31 Q7K1C3_DROME 0.10 8.3 6.3 0.07 CidA scrambles the CidB- Drosophila protein interactome CidA factors bind specifically to cognate CidB proteins and suppress CidB or Wolbachia toxicity in the yeast...”
- Investigation of the Developmental Requirements of Drosophila HP1 and Insulator Protein Partner, HIPP1
Glenn, G3 (Bethesda, Md.) 2019 - “...fold domains, seven with significant homology to HIPP1 ( CG4594 , CG5844 , CG6543 , CG6984 , CG8778 , CG9577 and CG13890 ). Analysis of the exon-intron structure within the crotonase-encoding regions of this subset of genes supports possible ancestry only between Cdyl and Hipp1 or...”
- A rapid one-generation genetic screen in a Drosophila model to capture rhabdomyosarcoma effectors and therapeutic targets
Galindo, G3 (Bethesda, Md.) 2014 - “..., CG9646 , fat-spondin , tef , CG8950 , CG6967 , CG30460 , Sply , CG6984 Candidate suppressors (53F8;54B2): GstS1 , CG30456 , CG15611 , Amy-p , CG15605 , Cda9 , Acp54A1 , CG11400 , Gbp , Cg11395 , CG43103 , CG43107 , CG17290 , CG17287...”
- Drosophila miR-277 controls branched-chain amino acid catabolism and affects lifespan
Esslinger, RNA biology 2013 - “...CG3267 1.11 1.24 n.s. yes CG2118 1.65 1.93 0.72 yes CG5044 0.63 0.55 n.s. yes CG6984 0.87 1.19 n.s. yes CG6543 1.25 1.25 n.s. yes CG9867 0.65 0.70 n.s. yes Usp7 0.58 0.58 n.s. - GlcAT-S 0.53 0.55 n.s. - Sin1 0.65 0.65 n.s. - CG5180...”
- More
MSMEG_1594 enoyl-CoA hydratase from Mycobacterium smegmatis str. MC2 155
45% identity, 86% coverage
- Biochemical and phenotypic characterisation of the Mycobacterium smegmatis transporter UspABC
Karlikowska, Cell surface (Amsterdam, Netherlands) 2021 - “...Conserved hypotheticals 2.4 MSMEG_1424 Rv0694 FMN-dependent dehydrogenase, possible L-lactate dehydrogenase Intermediary metabolism and respiration 2.2 MSMEG_1594 enoyl-CoA hydratase Lipid metabolism 1.8 MSMEG_2433 Rv2911 ( dacB2 ) D-alanyl-D-alanine carboxypeptidase Cell wall and cell processes 1.8 MSMEG_0889 succinic semialdehyde dehydrogenase Intermediary metabolism and respiration 1.7 MSMEG_5685 Rv0883c DNA-binding...”
H16_A0810 Enoyl-CoA hydratase/carnithine racemase from Ralstonia eutropha H16
42% identity, 85% coverage
A9762_11445 enoyl-CoA hydratase from Pandoraea sp. ISTKB
44% identity, 82% coverage
BTH_II1717 enoyl-CoA hydratase/isomerase family protein from Burkholderia thailandensis E264
44% identity, 85% coverage
D2SEQ2 Enoyl-CoA hydratase domain-containing protein 3, mitochondrial from Geodermatophilus obscurus (strain ATCC 25078 / DSM 43160 / JCM 3152 / CCUG 61914 / KCC A-0152 / KCTC 9177 / NBRC 13315 / NRRL B-3577 / G-20)
41% identity, 82% coverage
SPO2339, YP_167562 enoyl-CoA hydratase/isomerase family protein from Silicibacter pomeroyi DSS-3
SPO2339 enoyl-CoA hydratase-related protein from Ruegeria pomeroyi DSS-3
36% identity, 69% coverage
- An Updated genome annotation for the model marine bacterium Ruegeria pomeroyi DSS-3
Rivers, Standards in genomic sciences 2014 - “...ORF position YP_167514 SPO2290 Hypothetical protein ORF position YP_167549 SPO2326 Hypothetical protein ORF position YP_167562 SPO2339 Enoyl-CoA hydratase/isomerase family protein ORF position YP_167570 SPO2347 Hypothetical protein ORF position YP_167571 SPO2348 Sarcosine oxidase, beta subunit family ORF position YP_167714 SPO2499 Hypothetical protein ORF position YP_167808 SPO2595 Hypothetical...”
- “...Excinuclease ORF position YP_167514 SPO2290 Hypothetical protein ORF position YP_167549 SPO2326 Hypothetical protein ORF position YP_167562 SPO2339 Enoyl-CoA hydratase/isomerase family protein ORF position YP_167570 SPO2347 Hypothetical protein ORF position YP_167571 SPO2348 Sarcosine oxidase, beta subunit family ORF position YP_167714 SPO2499 Hypothetical protein ORF position YP_167808 SPO2595...”
CDR20291_0731 3-hydroxybutyryl-CoA dehydratase (crotonase) from Clostridium difficile R20291
35% identity, 80% coverage
CD630_08000, CDR20291_0731 enoyl-CoA hydratase-related protein from Clostridioides difficile 630
35% identity, 80% coverage
Msed_0384 Enoyl-CoA hydratase/isomerase from Metallosphaera sedula DSM 5348
35% identity, 80% coverage
- Convergent Evolution of a Promiscuous 3-Hydroxypropionyl-CoA Dehydratase/Crotonyl-CoA Hydratase in Crenarchaeota and Thaumarchaeota
Liu, mSphere 2021 - “...published data e Substrate, parameter Msed_2001 a , b Msed_0399 c , d Msed_0336 c Msed_0384 c Msed_0385 c Msed_0566 c 3-Hydroxypropionyl-CoA V max , U mg 1 protein 372 a /544 b 4.8 4 (Sp. act.) 4 (Sp. act.) ND ND K m , mM...”
- “...abundance can be ranked in the order Msed_2001 (set to 100%) > Msed_0399 (89%) > Msed_0384 (68%) > Msed_0385 (47%) > Msed_0566 (42%) > Msed_0336 (16%) ( Table3 ). The characterized crotonyl-CoA hydratase homologs (Msed_0399, Msed_0384, Msed_0336, and Msed_0566) display a V max too low to...”
- Enzymes Catalyzing Crotonyl-CoA Conversion to Acetoacetyl-CoA During the Autotrophic CO2 Fixation in Metallosphaera sedula
Liu, Frontiers in microbiology 2020 - “...Sulfolobales, strengthening this conclusion. Two uncharacterized crotonase homologs present in M. sedula genome (Msed_0336 and Msed_0384) were heterologously produced and characterized. Both proteins were highly efficient crotonyl-CoA hydratases and may contribute (or be responsible) for the corresponding reaction in the HP/HB cycle in vivo . 3-hydroxypropionate/4-hydroxybutyrate...”
- “...0.39 ND /2.2 f,h No Up 12.5 Hawkins et al., 2014 Crotonyl-CoA hydratase (14) Msed_0399 Msed_0384 Msed_0385 Msed_0336 Msed_0566 Msed_0399 15.0 13.8 f ,g /38 g /20 f,h ND ND ND ND No Down Down No No 19.7 Ramos-Vera et al., 2011 ; Hawkins et al.,...”
crt1 / A5N5C7 crotonase (EC 4.2.1.150) from Clostridium kluyveri (strain ATCC 8527 / DSM 555 / NCIMB 10680) (see paper)
34% identity, 82% coverage
AF0963 enoyl-CoA hydratase (fad-3) from Archaeoglobus fulgidus DSM 4304
32% identity, 83% coverage
TTE0544 Enoyl-CoA hydratase/carnithine racemase from Thermoanaerobacter tengcongensis MB4
36% identity, 81% coverage
- Alcohol Selectivity in a Synthetic Thermophilic n-Butanol Pathway Is Driven by Biocatalytic and Thermostability Characteristics of Constituent Enzymes
Loder, Applied and environmental microbiology 2015 - “...Torrance, CA). Recombinant production of pathway enzymes. TTE0544 (crt), TTE0548 (hbd), TTE0549 (thl), Teth514_1935 (X514-bdh), and Teth514_1942 (X514-bad) were...”
- “...CA_P0035 CA_P0035 Cbei_3832 CA_C3298 TTE0549 TTE0548 TTE0544 STHERM_c16300 Cthe_0423 Teth514_0627 Teth514_1942 Teth514_1935 Homology to Enzyme query Sequence-...”
- Quantitative proteomics reveals the temperature-dependent proteins encoded by a series of cluster genes in thermoanaerobacter tengcongensis
Chen, Molecular & cellular proteomics : MCP 2013 - “...instance, the genes in the consecutively down-regulated mode, TTE0544, TTE0545, TTE0546, TTE0547, and TTE0549 were located within a 6 kilobase pairs region. To...”
MELS_1449 short-chain-enoyl-CoA hydratase from Megasphaera elsdenii DSM 20460
34% identity, 81% coverage
Cbei_4544 enoyl-CoA hydratase/isomerase from Clostridium beijerincki NCIMB 8052
34% identity, 82% coverage
ECHS1 / P30084 short-chain enoyl-CoA hydratase monomer (EC 4.2.1.17) from Homo sapiens (see 7 papers)
ECHM_HUMAN / P30084 Enoyl-CoA hydratase, mitochondrial; mECH; mECH1; Enoyl-CoA hydratase 1; ECHS1; Short-chain enoyl-CoA hydratase; SCEH; EC 4.2.1.17; EC 5.3.3.8 from Homo sapiens (Human) (see 6 papers)
P30084 enoyl-CoA hydratase (EC 4.2.1.17) from Homo sapiens (see 3 papers)
NP_004083 enoyl-CoA hydratase, mitochondrial from Homo sapiens
34% identity, 78% coverage
- function: Converts unsaturated trans-2-enoyl-CoA species ((2E)-enoyl- CoA) to the corresponding (3S)-3hydroxyacyl-CoA species through addition of a water molecule to the double bond (PubMed:25125611, PubMed:26251176). Catalyzes the hydration of medium- and short-chained fatty enoyl-CoA thioesters from 4 carbons long (C4) up to C16 (PubMed:26251176). Has high substrate specificity for crotonyl-CoA ((2E)-butenoyl-CoA) and moderate specificity for acryloyl-CoA, 3- methylcrotonyl-CoA (3-methyl-(2E)-butenoyl-CoA) and methacrylyl-CoA ((2E)-2-methylpropenoyl-CoA) (PubMed:26251176). Can bind tiglyl-CoA (2- methylcrotonoyl-CoA), but hydrates only a small amount of this substrate (PubMed:26251176). Plays a key role in the beta-oxidation spiral of short- and medium-chain fatty acid oxidation (PubMed:25125611, PubMed:26251176). At a lower rate than the hydratase reaction, catalyzes the isomerase reaction of trans-3-enoyl-CoA species (such as (3E)-hexenoyl-CoA) to trans-2-enoyl-CoA species (such as (2E)- hexenoyl-CoA), which are subsequently hydrated to 3(S)-3-hydroxyacyl- CoA species (such as (3S)-hydroxyhexanoyl-CoA) (By similarity).
catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
catalytic activity: a (3E)-enoyl-CoA = a 4-saturated (2E)-enoyl-CoA (RHEA:45228)
catalytic activity: (3E)-hexenoyl-CoA = (2E)-hexenoyl-CoA (RHEA:45736)
catalytic activity: (3S)-3-hydroxybutanoyl-CoA = (2E)-butenoyl-CoA + H2O (RHEA:26558)
catalytic activity: 3-hydroxyisovaleryl-CoA = 3-methyl-(2E)-butenoyl-CoA + H2O (RHEA:31079)
catalytic activity: 3-hydroxypropanoyl-CoA = acryloyl-CoA + H2O (RHEA:26518)
catalytic activity: 3-hydroxybutanoyl-CoA = (2E)-butenoyl-CoA + H2O (RHEA:45584)
catalytic activity: (2E)-2-methylpropenoyl-CoA + H2O = (S)-3-hydroxyisobutanoyl- CoA (RHEA:31175)
catalytic activity: (3S)-hydroxyhexanoyl-CoA = (2E)-hexenoyl-CoA + H2O (RHEA:30547)
catalytic activity: (3S)-hydroxydecanoyl-CoA = (2E)-decenoyl-CoA + H2O (RHEA:31191)
subunit: Homohexamer; dimer of trimers. - Molecular and in silico investigation of a novel ECHS1 gene mutation in a consanguine family with short-chain enoyl-CoA hydratase deficiency and Mt-DNA depletion: effect on trimer assembly and catalytic activity.
Maalej, Metabolic brain disease 2024 (PubMed)- GeneRIF: Molecular and in silico investigation of a novel ECHS1 gene mutation in a consanguine family with short-chain enoyl-CoA hydratase deficiency and Mt-DNA depletion: effect on trimer assembly and catalytic activity.
- Delineating the neurological phenotype in children with defects in the ECHS1 or HIBCH gene.
Marti-Sanchez, Journal of inherited metabolic disease 2021 (PubMed)- GeneRIF: Delineating the neurological phenotype in children with defects in the ECHS1 or HIBCH gene.
- ECHS1 disease in two unrelated families of Samoan descent: Common variant - rare disorder.
Simon, American journal of medical genetics. Part A 2021 - GeneRIF: ECHS1 disease in two unrelated families of Samoan descent: Common variant - rare disorder.
- ECHS1, an interacting protein of LASP1, induces sphingolipid-metabolism imbalance to promote colorectal cancer progression by regulating ceramide glycosylation.
Li, Cell death & disease 2021 - GeneRIF: ECHS1, an interacting protein of LASP1, induces sphingolipid-metabolism imbalance to promote colorectal cancer progression by regulating ceramide glycosylation.
- Inactivation of the AMPK-GATA3-ECHS1 Pathway Induces Fatty Acid Synthesis That Promotes Clear Cell Renal Cell Carcinoma Growth.
Qu, Cancer research 2020 (PubMed)- GeneRIF: In clear cell renal cell carcinoma (ccRCC) ECHS1 downregulation induced fatty acid (FA) and branched-chain amino acid (BCAA) accumulation, which inhibited AMPK-promoted expression of GATA3, a transcriptional activator of ECHS1. BCAA accumulation induced activation of mTORC1 and de novo FA synthesis and promoted cell proliferation. GATA3 expression phenocopied ECHS1 in predicting ccRCC progression and patient survival.
- ECHS1 suppresses renal cell carcinoma development through inhibiting mTOR signaling activation.
Wang, Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie 2020 (PubMed)- GeneRIF: ECHS1 suppresses renal cell carcinoma development through inhibiting mTOR signaling activation.
- Novel ECHS1 mutations in Leigh syndrome identified by whole-exome sequencing in five Chinese families: case report.
Sun, BMC medical genetics 2020 - GeneRIF: Novel ECHS1 mutations in Leigh syndrome identified by whole-exome sequencing in five Chinese families: case report.
- Paroxysmal and non-paroxysmal dystonia in 3 patients with biallelic ECHS1 variants: Expanding the neurological spectrum and therapeutic approaches.
Illsinger, European journal of medical genetics 2020 (PubMed)- GeneRIF: Paroxysmal and non-paroxysmal dystonia in 3 patients with biallelic ECHS1 variants: Expanding the neurological spectrum and therapeutic approaches.
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- Cortical lipid metabolic pathway alteration of early Alzheimer's disease and candidate drugs screen.
Wang, European journal of medical research 2024 - “...Protein symbol Full name Score Up-regulated network 1 P80404 ABAT 4-Aminobutyrate aminotransferase, mitochondrial 0.997 2 P30084 ECHS1 Enoyl-CoA hydratase, mitochondrial 0.992 3 Q9BQ95 ECSIT Evolutionarily conserved signaling intermediate in Toll pathway, mitochondrial 0.994 4 O14842 FFAR1 Free fatty acid receptor 1 0.993 5 P03923 MT-ND6 NADH-ubiquinone...”
- Proteome architecture of human-induced pluripotent stem cell-derived three-dimensional organoids as a tool for early diagnosis of neuronal disorders
Negi, Indian journal of pharmacology 2023 - “...12 1.04 6.44E-03 18 P52943 Cysteine-rich protein 2 CRIP2 4 22.5 36 1.08 2.18E-03 19 P30084 Enoyl-CoA hydratase, mitochondrial ECHS1 4 31.4 23 1.1 1.68E-03 20 Q14165 Malectin MLEC 2 32.2 10 3.21 1.14E-10 21 Q10471 Polypeptide N-acetylgalactosaminyltransferase GALNT2 2 64.7 5 1.19 2.22E-03 22 A0A024RC16...”
- “...9 55.4 1.27 9 Q10471 Polypeptide N-acetylgalactosaminyl transferase 2 GALNT2 5 2 64.7 1.19 10 P30084 Enoyl-CoA hydratase, mitochondrial ECHS1 23 4 31.4 1.1 11 P52943 Cysteine-rich protein 2 CRIP2 36 4 22.5 1.08 12 P17677 Neuromodulin GAP43 63 13 24.8 1.03 13 P14550 Alcohol dehydrogenase...”
- Shared and Unique Disease Pathways in Amyotrophic Lateral Sclerosis and Parkinson's Disease Unveiled in Peripheral Blood Mononuclear Cells.
Lualdi, ACS chemical neuroscience 2023 - “...5.6 0.164 597 PSME1 Q06323 proteasome activator complex subunit 1 28.7 5.8 0.207 618 ECHS1 P30084 enoyl-CoA hydratase, mitochondrial 31.4 8.3 0.183 635 YWHAZ P63104 1433proteinzeta/delta 27.7 4.7 0.151 639 ARPC2 O15144 actin-related protein 2/3 complex subunit 2 34.3 6.8 0.196 683 WDR1 O75083 WD repeat-containing...”
- CLPX regulates mitochondrial fatty acid β-oxidation in liver cells.
Suzuki, The Journal of biological chemistry 2023 - “...CS Citrate synthase, mitochondrial 3 14 P63167 DYNLL1 Dynein light chain 1, cytoplasmic 1 3 P30084 ECHS1 Enoyl-CoA hydratase, mitochondrial 7 29 P13804 ETFA Electron transfer flavoprotein subunit alpha, mitochondrial 5 8 P40939 HADHA Trifunctional enzyme subunit alpha, mitochondrial 10 17 P55084 HADHB Trifunctional enzyme subunit...”
- 2D-DIGE-Based Proteomic Profiling with Validations Identifies Vimentin as a Secretory Biomarker Useful for Early Detection and Poor Prognosis in Oral Cancers
Sivagnanam, Journal of oncology 2022 - “...1, SV = 3 [PRDX6_HUMAN] 49.05 51.79 3 9 13 31 224 25.0 6.38 4 P30084 Enoyl CoAhydratase, mitochondrialOS = Homosapiens, GN = ECHS1, PE = 1, SV = 4 [ECHM_HUMAN] 63.59 45.86 1 9 15 39 290 31.4 8.07 5 P52565 RhoGDP dissociationinhibitor1OS = HomosapiensGN...”
- Dissecting Regulators of Aging and Age-Related Macular Degeneration in the Retinal Pigment Epithelium.
Karunadharma, Oxidative medicine and cellular longevity 2022 - “...59.1/6.3 56.8/5.98 25 11 20 D22 0.0078 2,3 0.0037, 0.0948 I, O Enoyl-CoA hydratase, mitochondrial P30084 ECHS1 29.4/6.6 28.3/5.88 48 14 30 Phosphoglycerate mutase 1 P18669 PGAM1 28.7/6.75 17 3 3 D23 0.0305 3,4 0.0266, 0.0887 I, A Aminoacylase 1 Q03154 ACY1 44.5/6.4 45.9/5.77 13 4...”
- HSP60 Regulates Lipid Metabolism in Human Ovarian Cancer
Li, Oxidative medicine and cellular longevity 2021 - “...sapiens GN=EHHADH PE=1 SV=3[ECHP_HUMAN] EHHADH 33.47 22 22 34 79.44 9.14 1.62 2.25 E 03 P30084 Enoyl-CoA hydratase, mitochondrial OS=Homo sapiens GN=ECHS1 PE=1 SV=4[ECHM_HUMAN] ECHS1 75.86 19 19 156 31.37 8.07 1.52 3.56 E 03 Q08426 Peroxisomal bifunctional enzyme OS=Homo sapiens GN=EHHADH PE=1 SV=3[ECHP_HUMAN] EHHADH 33.47...”
- “...sapiens GN=EHHADH PE=1 SV=3[ECHP_HUMAN] EHHADH 33.47 22 22 34 79.44 9.14 1.62 2.25 E 03 P30084 Enoyl-CoA hydratase, mitochondrial OS=Homo sapiens GN=ECHS1 PE=1 SV=4[ECHM_HUMAN] ECHM 75.86 19 19 156 31.37 8.07 1.52 3.56 E 03 Q16836 Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial OS=Homo sapiens GN=HADH PE=1 SV=3[HCDH_HUMAN] HCDH...”
- Proteome profiling of human placenta reveals developmental stage-dependent alterations in protein signature
Khorami, Clinical proteomics 2021 - “...2.738 Response to stress 6.958E-04 10 P30040 ERP29 0.1616 0.042 3.847 Protein folding 7.616E-05 11 P30084 ECHM 0.1258 0.104 1.210 Metabolic pathways 8.5655E-01 12 P0DML3 CSH2 0.207 0.376 0.550 Metabolic pathways 1.192E-02 13 P32119 PRDX2 0.276 0.551 0.500 Cellular response to external stimuli 5.214E-04 14 Q969H8...”
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TGME49_317705 enoyl-CoA hydratase/isomerase family protein from Toxoplasma gondii ME49
32% identity, 65% coverage
- Identification of three novel Toxoplasma gondii rhoptry proteins
Camejo, International journal for parasitology 2014 - “...8 11.7 7.3 583.m05758 TGME49_316540 IMC sub-compartment protein ISP3 (ISP3) 1 0 11.1 8.0 611.m00052 TGME49_317705 enoyl-CoA hydratase/isomerase family protein 8 0 10.5 7.2 641.m01483 TGME49_318470 AP2 domain transcription factor AP2IV-4 (AP2IV4) 1 0 9.3 6.5 641.m00181 TGME49_320740 hypothetical protein 5 1 Yes 11.7 8.6 645.m00324...”
ECHM_MOUSE / Q8BH95 Enoyl-CoA hydratase, mitochondrial; mECH; mECH1; Enoyl-CoA hydratase 1; ECHS1; Short-chain enoyl-CoA hydratase; SCEH; EC 4.2.1.17; EC 5.3.3.8 from Mus musculus (Mouse) (see paper)
NP_444349 enoyl-CoA hydratase, mitochondrial precursor from Mus musculus
34% identity, 78% coverage
- function: Converts unsaturated trans-2-enoyl-CoA species ((2E)-enoyl- CoA) to the corresponding (3S)-3-hydroxyacyl-CoA species through addition of a water molecule to the double bond. Catalyzes the hydration of medium- and short-chained fatty enoyl-CoA thioesters from 4 carbons long (C4) up to C16 (By similarity). Has high substrate specificity for crotonyl-CoA ((2E)-butenoyl-CoA) and moderate specificity for acryloyl-CoA, 3-methylcrotonyl-CoA (3-methyl-(2E)- butenoyl-CoA) and methacrylyl-CoA ((2E)-2-methylpropenoyl-CoA). Can bind tiglyl-CoA (2-methylcrotonoyl-CoA), but hydrates only a small amount of this substrate (By similarity). Plays a key role in the beta- oxidation spiral of short- and medium-chain fatty acid oxidation. At a lower rate than the hydratase reaction, catalyzes the isomerase reaction of trans-3-enoyl-CoA species (such as (3E)-hexenoyl-CoA) to trans-2-enoyl-CoA species (such as (2E)-hexenoyl-CoA), which are subsequently hydrated to 3(S)-3-hydroxyacyl-CoA species (such as (3S)- hydroxyhexanoyl-CoA) (By similarity).
catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
catalytic activity: a (3E)-enoyl-CoA = a 4-saturated (2E)-enoyl-CoA (RHEA:45228)
catalytic activity: (3E)-hexenoyl-CoA = (2E)-hexenoyl-CoA (RHEA:45736)
catalytic activity: (3S)-3-hydroxybutanoyl-CoA = (2E)-butenoyl-CoA + H2O (RHEA:26558)
catalytic activity: 3-hydroxyisovaleryl-CoA = 3-methyl-(2E)-butenoyl-CoA + H2O (RHEA:31079)
catalytic activity: 3-hydroxypropanoyl-CoA = acryloyl-CoA + H2O (RHEA:26518)
catalytic activity: 3-hydroxybutanoyl-CoA = (2E)-butenoyl-CoA + H2O (RHEA:45584)
catalytic activity: (2E)-2-methylpropenoyl-CoA + H2O = (S)-3-hydroxyisobutanoyl- CoA (RHEA:31175)
catalytic activity: (3S)-hydroxyhexanoyl-CoA = (2E)-hexenoyl-CoA + H2O (RHEA:30547)
catalytic activity: (3S)-hydroxydecanoyl-CoA = (2E)-decenoyl-CoA + H2O (RHEA:31191)
subunit: Homohexamer; dimer of trimers. - Branched-Chain Amino Acid Degradation Pathway was Inactivated in Colorectal Cancer: Results from a Proteomics Study
Lian, Journal of Cancer 2024 - “...Yes Q61425 Hadh Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial 21.34 7 1.01 0.53 0.51 Down 0.25 Yes Q8BH95 Echs1 Enoyl-CoA hydratase, mitochondrial 35.52 12 1 0.52 0.48 Down 0.99 Yes Q8QZT1 Acat1 Acetyl-CoA acetyltransferase, mitochondrial 17.45 9 1 0.63 0.62 Down 0.91 Yes Q9CZS1 Aldh1b1 Aldehyde dehydrogenase X,...”
- Comparative Proteomic Study of Retinal Ganglion Cells Undergoing Various Types of Cellular Stressors.
Starr, bioRxiv : the preprint server for biology 2024 - “...Kras protein Q5J7N1 0.027 reduced AP-1 complex subunit beta-1 O35643 0.005 reduced Enoyl-CoA hydratase, mitochondrial Q8BH95 0.045 reduced Transforming protein RhoA Q9QUI0 0.037 reduced Prohibitin P67778 0.044 reduced Transportin-1 Q8BFY9 0.040 reduced 26S proteasome non-ATPase regulatory subunit 2 Q8VDM4 0.023 reduced Tubby-related protein 1 Q9Z273 0.042...”
- Prenylcysteine Oxidase 1 Is a Key Regulator of Adipogenesis
Banfi, Antioxidants (Basel, Switzerland) 2023 - “...P97807 6 0.004 1.79 NEG Fumarate hydratase_ mitochondrial OS = Mus musculus GN = Fh Q8BH95 3 0.037 1.70 NEG Enoyl-CoA hydratase_ mitochondrial OS = Mus musculus GN = Echs1 Q9WTP7 2 0.007 1.68 NEG GTP:AMP phosphotransferase AK3_ mitochondrial OS = Mus musculus GN = Ak3...”
- ISG15 Is a Novel Regulator of Lipid Metabolism during Vaccinia Virus Infection.
Albert, Microbiology spectrum 2022 - “...Peroxisomal acyl-coenzyme A oxidase 3 8.97 P97742 Cpt1a Carnitine O -palmitoyltransferase 1, liver isoform 8.54 Q8BH95 Echs1 Enoyl-CoA hydratase, mitochondrial 8.31 Q07417 Acads Short-chain-specific acyl-CoA dehydrogenase, mitochondrial 7.62 P51174 Acadl Long-chain-specific acyl-CoA dehydrogenase, mitochondrial 6.74 Q8QZT1 Acat1 Acetyl-CoA acetyltransferase, mitochondrial 6.14 P42125 Eci1 Enoyl-CoA delta isomerase...”
- “...mitochondrial 7.71 Q9Z2Z6 Slc25a20 Mitochondrial carnitine/acylcarnitine carrier protein 6.67 Q9JHI5 Ivd Isovaleryl-CoA dehydrogenase, mitochondrial 6.39 Q8BH95 Echs1 Enoyl-CoA hydratase, mitochondrial 5.58 Q8JZN5 Acad9 Complex I assembly factor ACAD9, mitochondrial 5.39 Q99JY0 Hadhb Trifunctional enzyme subunit beta, mitochondrial 5.11 Q9CQ62 Decr1 2,4-Dienoyl-CoA reductase ([3E]-enoyl-CoA-producing), mitochondrial 4.23 P50544...”
- Proteomic Analysis of Mucopolysaccharidosis IIIB Mouse Brain
De, Biomolecules 2020 - “...M Q3TYV5 Cnp 2,3-cyclic-nucleotide 3-phosphodiesterase 0.5 0.00001 ERS B7U582 Heat shock protein 70-2 0.5 0.00001 Q8BH95 Echs1 Enoyl-CoA hydratase, mitochondrial 0.5 0.03689 M Q6P1J1 Crmp1 Crmp1 protein 0.5 0.00045 CK, C, N B2CY77 Rpsa Laminin receptor (Fragment) 0.5 0.01872 C, ERS, N, PM Q922F4 Tubb6 Tubulin...”
- PAX2 promotes epithelial ovarian cancer progression involving fatty acid metabolic reprogramming.
Feng, International journal of oncology 2020 - “...Peroxisomal bifunctional enzyme 1.71 Up 0.0032 Q61425 Hadh Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.69 Up 0.0012 Q8BH95 Echs1 Enoyl-CoA hydratase, mitochondrial 1.69 Up 0.0418 P51174 Acadl Long-chain specific acyl-CoA dehydrogenase, mitochondrial 1.64 Up 0.0386 Q921H8 Acaa1a 3-ketoacyl-CoA thiolase A, peroxisomal 1.57 Up 0.0249 Q9R0H0 Acox1 Peroxisomal acyl-coenzyme...”
- γ-Oryzanol Improves Cognitive Function and Modulates Hippocampal Proteome in Mice
Rungratanawanich, Nutrients 2019 - “...0.001 1.539 Q9CR68 Cytochrome b-c1 complex subunit Rieske, mitochondrial (Uqcrfs1) 19 29.3 8.70 0.000 2.014 Q8BH95 Enoyl-CoA hydratase, mitochondrial (Echs1) 30 31.5 8.48 0.001 1.226 P08226 Apolipoprotein E (ApoE) 19 35.8 5.68 0.000 2.826 P05064 Fructose-bisphosphate aldolase A (Aldoa) 61 39.3 8.09 0.001 0.413 P35486 Pyruvate...”
- Thymic Microenvironment Is Modified by Malnutrition and Leishmania infantum Infection
Losada-Barragán, Frontiers in cellular and infection microbiology 2019 - “...Up P56391 10046.87 3 16 0.779 2.2 0.003 Cytochrome c oxidase subunit 6B1 Cox6b1 Up Q8BH95 31436.2 4 21 1.269 3.6 0.001 Enoyl-CoA hydratase, mitochondrial Echs1 Up P08249 35570.75 4 22 0.697 2.0 0.001 Malate dehydrogenase, mitochondrial Mdh2 Up Q99KI0 85392.01 7 33 0.785 2.2 0.000...”
- More
- Type 2 diabetic obese db/db mice are refractory to myocardial ischaemic post-conditioning in vivo: potential role for Hsp20, F1-ATPase δ and Echs1.
Zhu, Journal of cellular and molecular medicine 2012 - GeneRIF: potential protein targets for the loss of PostC may include F(1)-ATPase gamma, Echs1 and Hsp20 that could regulate cellular ATP consumption/production and defense response to ischaemic stress
2hw5C / P30084 The crystal structure of human enoyl-coenzyme a (coa) hydratase short chain 1, echs1
34% identity, 80% coverage
- Ligand: crotonyl coenzyme a (2hw5C)
Msed_2001 / A4YI89 3-hydroxypropionyl-CoA dehydratase (EC 4.2.1.116) from Metallosphaera sedula (strain ATCC 51363 / DSM 5348 / JCM 9185 / NBRC 15509 / TH2) (see 2 papers)
HPCD_METS5 / A4YI89 3-hydroxypropionyl-coenzyme A dehydratase; 3-hydroxypropionyl-CoA dehydratase; EC 4.2.1.116 from Metallosphaera sedula (strain ATCC 51363 / DSM 5348 / JCM 9185 / NBRC 15509 / TH2) (see paper)
A4YI89 3-hydroxypropionyl-CoA dehydratase (EC 4.2.1.116) from Metallosphaera sedula (see 3 papers)
5zaiC / A4YI89 Crystal structure of 3-hydroxypropionyl-coa dehydratase from metallosphaera sedula (see paper)
WP_012021928 3-hydroxypropionyl-CoA dehydratase from Metallosphaera sedula
Msed_2001 Enoyl-CoA hydratase/isomerase from Metallosphaera sedula DSM 5348
32% identity, 79% coverage
- function: Plays a role in autotrophic carbon fixation via the 3- hydroxypropionate/4-hydroxybutyrate cycle. Catalyzes the reversible dehydration of 3-hydroxypropionyl-CoA to form acryloyl-CoA, and the reversible dehydration of (S)-3-hydroxybutyryl-CoA to form crotonyl- CoA. Inactive towards (R)-3-hydroxybutyryl-CoA.
catalytic activity: 3-hydroxypropanoyl-CoA = acryloyl-CoA + H2O (RHEA:26518)
subunit: Monomer. - Ligand: coenzyme a (5zaiC)
- Structural Insight into Substrate Specificity of 3-Hydroxypropionyl-Coenzyme A Dehydratase from Metallosphaera sedula.
Lee, Scientific reports 2018 - GeneRIF: Study reported Metallosphaera sedula 3-hydroxypropionyl-CoA dehydratase (Ms3HPCD) crystal structure in complex with Coenzyme A (CoA). Compared with the other enoyl-CoA hydratase family enzymes Ms3HPCD has a tightly formed alpha3 helix near the active site, and bulky aromatic residues are located at the enoyl-group binding site.
- A Novel Gene Cluster Is Involved in the Degradation of Lignin-Derived Monoaromatics in Thermus oshimai JL-2
Chakraborty, Applied and environmental microbiology 2021 (secret) - Genome analysis of the thermoacidophilic archaeon Acidianus copahuensis focusing on the metabolisms associated to biomining activities
Urbieta, BMC genomics 2017 - “...3-hydroxybutyryl-CoA dehydrogenase hpcD-hbd A4YDS4 651 EZQ11226 661 0 49 + (91) Bifunctional crotonyl-CoA hydratase/3-hydroxybutyryl-CoA dehydrogenase A4YI89 259 EZQ04864 257 2.00E -133 71 + (15) 3-hydroxypropionyl-coenzyme A dehydratase The proteins are identified by their NCBI accession number ( A. copahuensis ) or Uniprot identification number ( M....”
- Natural carbon fixation and advances in synthetic engineering for redesigning and creating new fixation pathways
Santos, Journal of advanced research 2023 - “...thus essential for the functioning of the 3-hydroxypropionate/4-hydroxybutyrate cycle [84] . In Metallosphaera sedula , Msed_2001 catalyzes the same reaction as Nmar_1028, and these two enzymes are homologous and have evolved independently from their respective bacterial homologs [15] . The existence of the HP/HB cycle in...”
- Convergent Evolution of a Promiscuous 3-Hydroxypropionyl-CoA Dehydratase/Crotonyl-CoA Hydratase in Crenarchaeota and Thaumarchaeota
Liu, mSphere 2021 - “...both reactions are catalyzed in the aforementioned archaeal groups by a promiscuous 3-hydroxypropionyl-CoA dehydratase/crotonyl-CoA hydratase (Msed_2001 in crenarchaeon Metallosphaera sedula and Nmar_1308 in thaumarchaeon Nitrosopumilus maritimus ). Although these two enzymes are homologous, they are closely related to bacterial enoyl-CoA hydratases and were retrieved independently from...”
- “...Fig.1 ). In M. sedula , two dehydratases/hydratases have been characterized, (i) 3-hydroxypropionyl-CoA dehydratase (3HPD) Msed_2001 that acts equally well as crotonyl-CoA hydratase, and (ii) a bifunctional fusion protein crotonyl-CoA hydratase/( S )-3-hydroxybutyryl-CoA dehydrogenase Msed_0399; they are both present in, and were purified from, autotrophically grown...”
- Structural insights into bifunctional thaumarchaeal crotonyl-CoA hydratase and 3-hydroxypropionyl-CoA dehydratase from Nitrosopumilus maritimus
Destan, Scientific reports 2021 - “...addition, it was recently discovered that the Nmar_1308 homolog in the crenarchaeon Metallosphaera sedula (5ZA1; Msed_2001), previously characterized as 3HPD 23 , can also function as a CCAH 22 , 23 . Despite the critical role of Nmar_1308 protein in this aerobic archaeal CO 2 fixation...”
- “...5JBX) superposed with the Nmar_1308 structure with the indicated root mean squared deviation (RMSD) values. Msed_2001 (PDB IDs: 5ZAI) is shown as bifunctional 22 , 26 . It is notable that the RMSD value between Msed_2001 and Nmar_1308 is quite small, 0.91, the lowest among the...”
- Enzymes Catalyzing Crotonyl-CoA Conversion to Acetoacetyl-CoA During the Autotrophic CO2 Fixation in Metallosphaera sedula
Liu, Frontiers in microbiology 2020 - “...Msed_1456 Msed_1456 0.24 18 g / Up 0.7 Alber et al., 2008 3-Hydroxypropionyl-CoA dehydratase (5) Msed_2001 Msed_2001 0.24 /151 f,g /272 f,g No 0.04 Teufel et al., 2009 ; Loder et al., 2016 Acryloyl-CoA reductase (6) Msed_1426 Msed_1426 0.24 /7.6 f,g /18.7 f,g,h Up 0.9 Teufel...”
- “...2013a ; Ai et al., 2019 ). The studied crotonases are homologous to 3-hydroxypropionyl-CoA dehydratase Msed_2001 and possess low 3-hydroxypropionyl-CoA dehydratase activity ( Table 2 ), thus probably also contributing to 3-hydroxypropionyl-CoA dehydratase activity in the cells. 3-Hydroxypropionyl-CoA dehydratase, in turn, has crotonase activity ( Teufel...”
- Reaction kinetic analysis of the 3-hydroxypropionate/4-hydroxybutyrate CO2 fixation cycle in extremely thermoacidophilic archaea
Loder, Metabolic engineering 2016 - “...expression, and purification of HPCS, HPCD, ACR, MCR, and SSR The genes hpcs (Msed_1456), hpcd (Msed_2001), acr (Msed_1426), mcr (Msed_0709), and ssr (Msed_1424) were amplified from genomic DNA using the primers listed in Supplementary Table S1 . The genes hpcs, acr and ssr were ligated into...”
- “...ACR and SSR by Yeast Two Hybrid (A) Genomic context of HPCS (Msed_1456) and SSR (Msed_2001); ACR (Msed_1426) and SSR (Msed_1424). (B) Yeast two hybrid analyses of HPCS and HPCD, ACR and SSR. For HPCS and HPCD assay, Vector AD and BK, AD and BK-Msed_2001, AD-Msed_1456...”
- Conversion of 4-hydroxybutyrate to acetyl coenzyme A and its anapleurosis in the Metallosphaera sedula 3-hydroxypropionate/4-hydroxybutyrate carbon fixation pathway
Hawkins, Applied and environmental microbiology 2014 - “...Msed_0148, Msed_1375 Msed_0709 Msed_1993 Msed_1456 Msed_2001 Msed_1426 Msed_0639 Msed_0638, Msed_2055 Msed_1424 Msed_0406 Msed_1321 Msed_0399 Msed_0656 NCE...”
- Role of 4-hydroxybutyrate-CoA synthetase in the CO2 fixation cycle in thermoacidophilic archaea
Hawkins, The Journal of biological chemistry 2013 - “...Msed_0148 Msed_1375 Msed_0709 Msed_1993 Msed_1456 Msed_2001 Msed_1426 Msed_0639 Msed_0638 Msed_2055 Msed_1424 Msed_0394 Msed_0406 Msed_1321 Msed_0399 Msed_0656...”
- Epimerase (Msed_0639) and mutase (Msed_0638 and Msed_2055) convert (S)-methylmalonyl-coenzyme A (CoA) to succinyl-CoA in the Metallosphaera sedula 3-hydroxypropionate/4-hydroxybutyrate cycle
Han, Applied and environmental microbiology 2012 - “...Msed_0148() Msed_1375() Msed_0709 Msed_1993 Msed_1456 Msed_2001 Msed_1426 Msed_0639 Msed_0638 Msed_2055 Acetyl-CoA/propionyl-CoA carboxylase Native (28, 44)...”
- More
Slip_2089 enoyl-CoA hydratase-related protein from Syntrophothermus lipocalidus DSM 12680
32% identity, 82% coverage
- Convergent Evolution of a Promiscuous 3-Hydroxypropionyl-CoA Dehydratase/Crotonyl-CoA Hydratase in Crenarchaeota and Thaumarchaeota
Liu, mSphere 2021 - “...Catalytic properties of 3-hydroxypropionyl-CoA dehydrases/crotonyl-CoA hydratases Msed_2001 and Nmar_1308 as well as homologous enoyl-CoA hydratase Slip_2089 from S. lipocalidus d Substrate Msed_2001 Nmar_1308 Slip_2089 V max (Umg 1 protein) K m (mM) k cat / K m (s 1 mM 1 ) a V max (Umg...”
- “...catalytic properties of one of those homologs, i.e., the enoyl-CoA hydratase homolog from Syntrophothermus lipocalidus Slip_2089, were studied. FIG3 Maximum likelihood phylogenetic tree of 3-hydroxypropionyl-CoA dehydratases/crotonyl-CoA hydratases. Msed_2001, Nmar_1308, and Slip_2089 are marked with *. Bacterial sequences are shown in green, euryarchaeal in black, the sequences...”
XP_001123353 probable enoyl-CoA hydratase, mitochondrial from Apis mellifera
31% identity, 80% coverage
CBO3202 3-hydroxybutyryl-CoA dehydratase from Clostridium botulinum A str. ATCC 3502
35% identity, 77% coverage
- Heat shock and prolonged heat stress attenuate neurotoxin and sporulation gene expression in group I Clostridium botulinum strain ATCC 3502
Selby, PloS one 2017 - “...motility ( sigD , cheA , and flgE ), and carbon metabolism ( cbo3199 , cbo3202 ), and included genes showing significantly activated or suppressed, or unaffected transcription levels in the microarray analysis. A linear regression analysis revealed a strong correlation between the log 2 fold-changes...”
- “...of these compounds in heat stressed C . botulinum culture. Two of these genes ( cbo3202 and cbo3199 ) were linked also to low-temperature stress response of ATCC 3502 at 17C [ 65 ]. Interestingly, butyrate in the growth medium has been shown to induce toxin...”
- The cold-induced two-component system CBO0366/CBO0365 regulates metabolic pathways with novel roles in group I Clostridium botulinum ATCC 3502 cold tolerance
Dahlsten, Applied and environmental microbiology 2014 - “...base 467 in antisense orientation, erm Insertional disruption of cbo3202 at base 167 in antisense orientation, erm ATCCa 15 This study This study This study...”
- “...with L1.LtrB retargeted to base 167 of cbo3202 in antisense orientation Recombinant protein expression vector, kanR pET-28b() harboring cbo0365 with N-terminal...”
- Transcriptomic analysis of (group I) Clostridium botulinum ATCC 3502 cold shock response
Dahlsten, PloS one 2014 - “..., cbo1407 , cbo2226 , cbo2227 , cbo2525 , cbo2847 , cbo2961 , cbo3199 and cbo3202 one hour after the cold shock, normalized to 16S rrn transcript levels and calibrated to pre-cold-shock transcript levels, were calculated using the Cq values obtained from qPCR runs. The Cq...”
- “...previous study [13] for genes cbo0751, cbo0753, cbo1407, cbo2226, cbo2227, cbo2525, cbo2847, cbo3199 , and cbo3202 ; all other data were produced in the current study. In a linear regression analysis between the microarray and RT-qPCR log 2 fold changes ( Fig. 2 ), a R...”
badK / O07453 BadK from Rhodopseudomonas palustris (see paper)
RPA0650 cyclohex-1-ene-1-carboxyl-CoA hydratase from Rhodopseudomonas palustris CGA009
32% identity, 85% coverage
CPF_0090 3-hydroxybutyryl-CoA dehydratase from Clostridium perfringens ATCC 13124
34% identity, 82% coverage
Q1ZXF1 Probable enoyl-CoA hydratase, mitochondrial from Dictyostelium discoideum
32% identity, 80% coverage
- Genome-wide identification of pathogenicity factors of the free-living amoeba Naegleria fowleri
Zysset-Burri, BMC genomics 2014 - “...Tu Anaeromyxobacter sp. Fw109-5 2.46 2.42 Q9CR62 Mitochondrial 2-oxoglutarate/malate carrier protein Mus musculus 2.56 3.14 Q1ZXF1 Probable enoyl-CoA hydratase, mitochondrial Dictyostelium discoideum 2.69 4.44 F4P6T0 Ubiquinol oxidase, mitochondrial Batrachochytrium dendrobatidis JAM81 2.97 5.61 P77735 Uncharacterized oxidoreductase YajO Escherichia coli K-12 3.06 2.15 Q889U1 Single-stranded DNA-binding protein...”
CPE0095 crotonase from Clostridium perfringens str. 13
34% identity, 82% coverage
ECHM_RAT / P14604 Enoyl-CoA hydratase, mitochondrial; mECH; mECH1; Enoyl-CoA hydratase 1; ECHS1; Short-chain enoyl-CoA hydratase; SCEH; EC 4.2.1.17; EC 5.3.3.8 from Rattus norvegicus (Rat) (see 6 papers)
P14604 enoyl-CoA hydratase (EC 4.2.1.17); DELTA3,5-DELTA2,4-dienoyl-CoA isomerase (EC 5.3.3.21) from Rattus norvegicus (see 6 papers)
NP_511178 enoyl-CoA hydratase, mitochondrial precursor from Rattus norvegicus
33% identity, 78% coverage
- function: Converts unsaturated trans-2-enoyl-CoA species ((2E)-enoyl- CoA) to the corresponding 3(S)-3-hydroxyacyl-CoA species through addition of a water molecule to the double bond (PubMed:10074351, PubMed:7883013). Catalyzes the hydration of medium- and short-chained fatty enoyl-CoA thioesters from 4 carbons long (C4) up to C16 (PubMed:10074351, PubMed:7883013). Has high substrate specificity for crotonyl-CoA ((2E)-butenoyl-CoA) and moderate specificity for acryloyl- CoA, 3-methylcrotonyl-CoA (3-methyl-(2E)-butenoyl-CoA) and methacrylyl- CoA ((2E)-2-methylpropenoyl-CoA). Can bind tiglyl-CoA (2- methylcrotonoyl-CoA), but hydrates only a small amount of this substrate (By similarity). Plays a key role in the beta-oxidation spiral of short- and medium-chain fatty acid oxidation (PubMed:7883013). At a lower rate than the hydratase reaction, catalyzes the isomerase reaction of trans-3-enoyl-CoA species (such as (3E)-hexenoyl-CoA) to trans-2-enoyl-CoA species (such as (2E)-hexenoyl- CoA), which are subsequently hydrated to 3(S)-3-hydroxyacyl-CoA species (such as (3S)-hydroxyhexanoyl-CoA) (PubMed:10074351).
catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
catalytic activity: a (3E)-enoyl-CoA = a 4-saturated (2E)-enoyl-CoA (RHEA:45228)
catalytic activity: (3E)-hexenoyl-CoA = (2E)-hexenoyl-CoA (RHEA:45736)
catalytic activity: (3S)-3-hydroxybutanoyl-CoA = (2E)-butenoyl-CoA + H2O (RHEA:26558)
catalytic activity: 3-hydroxyisovaleryl-CoA = 3-methyl-(2E)-butenoyl-CoA + H2O (RHEA:31079)
catalytic activity: 3-hydroxypropanoyl-CoA = acryloyl-CoA + H2O (RHEA:26518)
catalytic activity: 3-hydroxybutanoyl-CoA = (2E)-butenoyl-CoA + H2O (RHEA:45584)
catalytic activity: (2E)-2-methylpropenoyl-CoA + H2O = (S)-3-hydroxyisobutanoyl- CoA (RHEA:31175)
catalytic activity: (3S)-hydroxyhexanoyl-CoA = (2E)-hexenoyl-CoA + H2O (RHEA:30547)
catalytic activity: (3S)-hydroxydecanoyl-CoA = (2E)-decenoyl-CoA + H2O (RHEA:31191)
subunit: Homohexamer; dimer of trimers. - Functional proteomic analysis of nonalcoholic fatty liver disease in rat models: enoyl-coenzyme a hydratase down-regulation exacerbates hepatic steatosis.
Zhang, Hepatology (Baltimore, Md.) 2010 (PubMed)- GeneRIF: enoyl-coenzyme a hydratase down-regulation exacerbates hepatic steatosis.
- The mitochondrial proteomic changes of rat hippocampus induced by 28-day simulated microgravity.
Ji, PloS one 2022 - “...P12007 Ivd Isovaleryl-CoA dehydrogenase, mitochondrial 1.73 0.008189 THTR_RAT P24329 Tst Thiosulfate sulfurtransferase 1.73 0.009805 ECHM_RAT P14604 Echs1 Enoyl-CoA hydratase, mitochondrial 1.72 0.001788 ACON_RAT Q9ER34 Aco2 Aconitate hydratase, mitochondrial 1.71 0.002251 CALR_RAT P18418 Calr Calreticulin 1.71 0.00505 PPIF_RAT P29117 Ppif Peptidyl-prolyl cis-trans isomerase F, mitochondrial 1.70 0.002718...”
- Space Radiation-Induced Alterations in the Hippocampal Ubiquitin-Proteome System
Tidmore, International journal of molecular sciences 2021 - “...Exposure Marker (TEM) signature proteins. UniProt Accession Numbers F1LQ48 * P13803 Q07303 Q4KLM4 * O35763 P14604 Q02874 Q5M9I5 O70511 P18484 P62243 * Q63803 P09330 P21396 P53676 Q68FS2 * P13638 P26772 P48679 * Q91XU8 Fully mapped and annotated in UniProt. * Denotes matched to UPS data base....”
- Myocardial proteomic profile in pulmonary arterial hypertension.
Hołda, Scientific reports 2020 - “...1.19 P14408 Fh Fumarate hydratase, mitochondrial 1.09 P11951 Cox6c2 Cytochrome c oxidase subunit 6C-2 1.19 P14604 Echs1 Enoyl-CoA hydratase, mitochondrial 1.10 P07895 Sod2 Superoxide dismutase [Mn], mitochondrial 1.19 Q9ER34 Aco2 Aconitate hydratase, mitochondrial 1.10 P07340 Atp1b1 Sodium/potassium-transporting ATPase subunit beta-1 1.20 P12007 Ivd Isovaleryl-CoA dehydrogenase, mit...”
- Transcriptome analysis of genes and pathways associated with metabolism in Scylla paramamosain under different light intensities during indoor overwintering.
Li, BMC genomics 2020 - “...dipeptidase Q96KP4 0.1312 0.0006 0.2145 0.0087 Spermidine synthase Q64674 0.5022 0.0310 0.5562 0.0409 Enoyl-CoA hydratase P14604 0.4812 0.0056 Alpha-aminoadipic semialdehyde dehydrogenase Q2KJC9 0.4374 0.0041 Fatty acid elongation (ko00062) Lysosomal thioesterase PPT2 O70489 3.4756 0.0236 3.1206 0.0462 Lysosomal thioesterase PPT2-B Q6GNY7 1.9706 0.0252 3.0013 1.27E-05 3-ketoacyl-CoA thiolase...”
- Inflammation and apoptosis accelerate progression to irreversible atrophy in denervated intrinsic muscles of the hand compared with biceps: proteomic analysis of a rat model of obstetric brachial plexus palsy.
Yu, Neural regeneration research 2020 - “...P12785 * , A0A0G2K5G8 * , Q63151 * , P33124, P17764, Q9WVK7, Q9WVK3, P08503, P70584, P14604, Q5M9H2, Q63704 0.002 Pathways at 5 weeks Glycolysis/gluconeogenesis 29 G3V9W6 * , P25113 * , D3ZZN3, P07323, P30835, A0A0G2JZH8, Q6P9U7, E9PTN6, D4A5G8, Q9Z1N1, B1WBN9, P49432, E9PTV9, Q6P6R2, P08461, P27881, P09117,...”
- “...0.001 Fatty acid metabolism 18 O35547 * , Q63151 * , P70584, Q9WVK3, P33124, G3V9U2, P14604, P17764, P15651, Q64428, Q5M9H2, Q9WVK7, Q60587, P18163, P18886, P08503, P07896, G3V7N5 < 0.001 Calcium signaling 16 P11275, P20651, A0A0G2K9C8, P13286, Q64578, A0A0G2JSR0, F1LLZ7, Q304F3, G3V731, A0A0G2K5J1, F1LQL1, P29117, Q9Z2L0, Q05962,...”
- 2-Methoxyestradiol protects against pressure overload-induced left ventricular hypertrophy
Maayah, Scientific reports 2018 - “...Enoyl-CoA delta isomerase 1 0.48 (0.025) 0.97 (0.921) P45953 Acyl-CoA dehydrogenase 0.59 (0.025) 1.44 (0.15) P14604 Enoyl-CoA hydratase 0.60 (0.039) 1.01 (0.97) Q64591 2,4-Dienoyl-CoA reductase 0.39 (0.145) 2.76 (0.038) Q5XIT9 Methylcrotonoyl-CoA carboxylase beta chain 0.85 (0.086) 1.63 (0.041) P35738 2-Oxoisovalerate dehydrogenase 0.63 (0.028) 2.61 (0.14) Q920L2...”
- Quantitative proteomic analysis of intracerebral hemorrhage in rats with a focus on brain energy metabolism.
Liu, Brain and behavior 2018 - “...Inpp5j Phosphatidylinositol 4,5bisphosphate 5phosphatase A 0.72 P13221 44.91 71.43 54 Got1 Aspartate aminotransferase, cytoplasmic 0.74 P14604 24.5 53.45 20 Echs1 EnoylCoA hydratase, mitochondrial 0.76 Inflammation and stress Q63041 68.56 29.87 53 Pzp Alpha1macroglobulin 25.40 M0RBF1 71.38 31.21 49 C3 Complement C3 23.34 P24090 12.52 35.80 10...”
- iTRAQ-Based Proteomics Analysis Reveals the Effect of Rhubarb in Rats with Ischemic Stroke.
Lin, BioMed research international 2018 - “...Protein deglycase DJ-1 22 1.76 31 D4AA63 Ubqln2 24.33 27.12 Protein Ubqln2 22 1.53 32 P14604 Echs1 24.5 53.45 Enoyl-CoA hydratase, mitochondrial 20 2.09 33 P08461 Dlat 27.5 35.60 Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial 25 3.38 34 P63086 Mapk1 31.61 49.16 Mitogen-activated protein...”
- “...Long-term potentiation 4 0.004732 P62161, A0A0H2UHV6, P63086, P11275 rno01200: Carbon metabolism 4 0.025472 P05708, Q6P6R2, P14604, P08461 rno04722: Neurotrophin signaling pathway 4 0.028277 P61589, P62161, P63086, P11275 rno05020: Prion diseases 3 0.012162 P06761, A0A0G2K0M8, P63086 rno05031: Amphetamine addiction 3 0.044482 P62161, A0A0H2UHV6, P11275 rno05214: Glioma 3...”
- More
Dred_1781 Enoyl-CoA hydratase/isomerase from Desulfotomaculum reducens MI-1
33% identity, 80% coverage
RPPS3_06600 enoyl-CoA hydratase-related protein from Rhodopseudomonas palustris
32% identity, 85% coverage
1dubA / P14604 2-enoyl-coa hydratase, data collected at 100 k, ph 6.5 (see paper)
33% identity, 78% coverage
- Ligand: acetoacetyl-coenzyme a (1dubA)
Ccar_22780, Ccar_RS22775 short-chain-enoyl-CoA hydratase from Clostridium carboxidivorans P7
32% identity, 84% coverage
- Metabolic engineering of Clostridium ljungdahlii for the production of hexanol and butanol from CO2 and H2
Lauer, Microbial cell factories 2022 - “...butyryl-CoA/hexanoyl-CoA biosynthesis. Two homologous sets of these genes are present in the C. carboxidivorans genome: Ccar_RS22775 Ccar_RS22800 (Ccar1) and Ccar_RS01400 Ccar_RS01430 (Ccar2). We therefore amplified them from genomic DNA and placed them under the control of the C. acetobutylicum constitutive thlA promoter or the C. ljungdahlii...”
- Combination of Trace Metal to Improve Solventogenesis of Clostridium carboxidivorans P7 in Syngas Fermentation
Han, Frontiers in microbiology 2020 - “...fdhIV Formate dehydrogenase Ccar_16050 fdhV Formate dehydrogenase Ccar_22795 bcd Butyryl-CoA dehydrogenase Butyral-CoA synthesis from acetyl-CoA Ccar_22780 crt Crotonase Ccar_22785 hbd 3-Hydroxybutyryl-CoA dehydrogenase Ccar_22790 thl Acetyl-CoA acetyltransferase Ccar_22800 etfB Electron transfer flavoprotein Ccar_22805 etfA Electron transfer flavoprotein subunit alpha Ccar_00690 pta Phosphate acetyltransferase Acetate synthesis from acetyl-CoA...”
- “...etfA , and etfB . These six genes were clustered together on the chromosome from Ccar_22780 to Ccar_22805 and were all dramatically up-regulated under the Mo (0x) condition compared to levels observed in the Mo (1x) condition ( Figure 5B ). Two adjacent CDSs (Ccar_19515 and...”
RPYSC3_06760 enoyl-CoA hydratase-related protein from Rhodopseudomonas palustris
32% identity, 85% coverage
P34559 Probable enoyl-CoA hydratase, mitochondrial from Caenorhabditis elegans
32% identity, 79% coverage
U3J3G1 Enoyl-CoA hydratase, mitochondrial from Anas platyrhynchos platyrhynchos
33% identity, 91% coverage
GAH_01332 enoyl-CoA hydratase/isomerase family protein from Geoglobus ahangari
29% identity, 82% coverage
ECHS1 / Q58DM8 short chain enoyl-CoA hydratase subunit (EC 4.2.1.150) from Bos taurus (see 5 papers)
NP_001020377 enoyl-CoA hydratase, mitochondrial precursor from Bos taurus
32% identity, 78% coverage
DSY1709 hypothetical protein from Desulfitobacterium hafniense Y51
33% identity, 79% coverage
Rru_A3801 Enoyl-CoA hydratase/isomerase from Rhodospirillum rubrum ATCC 11170
30% identity, 80% coverage
AzCIB_1939 enoyl-CoA hydratase from Azoarcus sp. CIB
33% identity, 78% coverage
PG1079 enoyl-CoA hydratase/isomerase family protein from Porphyromonas gingivalis W83
35% identity, 81% coverage
CNI00240 enoyl-CoA hydratase from Cryptococcus neoformans var. neoformans JEC21
29% identity, 84% coverage
Nmar_1308 Enoyl-CoA hydratase/isomerase from Nitrosopumilus maritimus SCM1
35% identity, 80% coverage
- Structural insights into bifunctional thaumarchaeal crotonyl-CoA hydratase and 3-hydroxypropionyl-CoA dehydratase from Nitrosopumilus maritimus
Destan, Scientific reports 2021 - “...of the most energy-efficient CO 2 fixation cycles discovered thus far. The protein encoded by Nmar_1308 (from Nitrosopumilus maritimus SCM1) is a promiscuous enzyme that catalyzes two essential reactions within the thaumarchaeal 3HP/4HB cycle, functioning as both a crotonyl-CoA hydratase (CCAH) and 3-hydroxypropionyl-CoA dehydratase (3HPD). In...”
- “...fewer than the Calvin-Benson-Bassham cycle 1 . Figure 1 The dual enzymatic steps catalyzed by Nmar_1308 in the thaumarcheal 3HP/4HB cycle. Representation of 3HP/4HB cycle reactions in the thaumarcheal variant. The reaction showing the energy efficiency of the taumarcheal cycle is colored in red. Highlighted rectangle...”
- Structural Insights into Bifunctional Thaumarchaeal Crotonyl-CoA Hydratase and 3-Hydroxypropionyl-CoA Dehydratase from Nitrosopumilus maritimus
Destan, 2021 - Convergent Evolution of a Promiscuous 3-Hydroxypropionyl-CoA Dehydratase/Crotonyl-CoA Hydratase in Crenarchaeota and Thaumarchaeota
Liu, mSphere 2021 - “...aforementioned archaeal groups by a promiscuous 3-hydroxypropionyl-CoA dehydratase/crotonyl-CoA hydratase (Msed_2001 in crenarchaeon Metallosphaera sedula and Nmar_1308 in thaumarchaeon Nitrosopumilus maritimus ). Although these two enzymes are homologous, they are closely related to bacterial enoyl-CoA hydratases and were retrieved independently from the same enzyme pool by the...”
- “...grown M. sedula , at best. TABLE4 Catalytic properties of 3-hydroxypropionyl-CoA dehydrases/crotonyl-CoA hydratases Msed_2001 and Nmar_1308 as well as homologous enoyl-CoA hydratase Slip_2089 from S. lipocalidus d Substrate Msed_2001 Nmar_1308 Slip_2089 V max (Umg 1 protein) K m (mM) k cat / K m (s 1...”
- Stress response of a marine ammonia-oxidizing archaeon informs physiological status of environmental populations
Qin, The ISME journal 2018 - “...synthetase (Nmar_1309), 3-hydroxybutyryl-CoA dehydratase (Nmar_1308), 4-hydroxybutyryl-CoA dehydratase (Nmar_0207), and acetoacetyl-CoA -ketothiolase...”
- Ammonia-oxidizing archaea use the most energy-efficient aerobic pathway for CO2 fixation
Könneke, Proceedings of the National Academy of Sciences of the United States of America 2014 - “...160 20 1.5 Nmar_0272/0273/0274 ? ? Nmar_1309 Nmar_1308 ? Nmar_0272/0273/0274 Nmar_0953 Nmar_0954/0958 ? ? Nmar_0206 Nmar_0207 Nmar_1308 Nmar_1028 Nmar_0841...”
- “...an enoyl-CoA hydratase of the crotonase family (Nmar_1308) that may represent a 3-hydroxypropionyl-CoA dehydratase, the next enzyme in the reaction sequence....”
- A metaproteomic assessment of winter and summer bacterioplankton from Antarctic Peninsula coastal surface waters
Williams, The ISME journal 2012 - “...dehydratase Nmar_0207 Crotonyl-CoA hydratase Nmar_1308 3-Hydroxybutyryl-CoA dehydrogenase Nmar_1028 (NAD ) Acetoacetyl-CoA beta-ketothiolase Nmar_1631...”
- 3-hydroxypropionyl-coenzyme A dehydratase and acryloyl-coenzyme A reductase, enzymes of the autotrophic 3-hydroxypropionate/4-hydroxybutyrate cycle in the Sulfolobales
Teufel, Journal of bacteriology 2009 - “...autotrophic marine group I Archaea (Nitrosopumilus sp. Nmar_1308 and Cenarchaeum sp. CENSYa_0166) shows only moderate similarity with the Metallosphaera en-...”
- “...acid sequence identity and 65 to 69% similarity for Nmar_1308 and 65% CENSYa_0166). It should be stressed, however, that the enoyl-CoA hydratase family and the...”
CCNA_00006 enoyl-CoA hydratase from Caulobacter crescentus NA1000
CC0006 enoyl-CoA hydratase/isomerase family protein from Caulobacter crescentus CB15
31% identity, 81% coverage
crt / P52046 crotonase monomer (EC 4.2.1.74; EC 4.2.1.150) from Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787) (see 3 papers)
CRT_CLOAB / P52046 Short-chain-enoyl-CoA hydratase; 3-hydroxybutyryl-CoA dehydratase; Crotonase; EC 4.2.1.150 from Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / IAM 19013 / LMG 5710 / NBRC 13948 / NRRL B-527 / VKM B-1787 / 2291 / W) (see 2 papers)
P52046 short-chain-enoyl-CoA hydratase (EC 4.2.1.150) from Clostridium acetobutylicum (see paper)
crt 3-hydroxybutyryl-CoA dehydratase; EC 4.2.1.55 from Clostridium acetobutylicum (see paper)
CA_C2712 short-chain-enoyl-CoA hydratase from Clostridium acetobutylicum ATCC 824
CAC2712 Crotonase (3-hydroxybutyryl-COA dehydratase) from Clostridium acetobutylicum ATCC 824
34% identity, 78% coverage
- function: Catalyzes the reversible hydration of crotonyl-CoA. Can also use hexenoyl-CoA but not higher analogs.
catalytic activity: a short-chain (3S)-3-hydroxyacyl-CoA = a short-chain (2E)- enoyl-CoA + H2O (RHEA:52664)
subunit: Homotetramer. - Clostridium acetobutylicum grows vegetatively in a biofilm rich in heteropolysaccharides and cytoplasmic proteins
Liu, Biotechnology for biofuels 2018 - “...factor I protein Hfq 12 CA_C3125 299 7908 7 3 5.4 Ribosomal protein L29 13 CA_C2712 571 28,400 28 10 4.9 Crotonase 14 CA_C1807 182 10,251 7 5 4.8 Ribosomal Protein S15 15 CA_C3211 1113 10,341 59 6 4.7 DNA binding protein HU 16 CA_P0164 1098...”
- Alcohol Selectivity in a Synthetic Thermophilic n-Butanol Pathway Is Driven by Biocatalytic and Thermostability Characteristics of Constituent Enzymes
Loder, Applied and environmental microbiology 2015 - “...Ter AdhE AdhE Bad Bdh CA_C2873 CA_C2708 CA_C2712 TDE_0597 CA_P0035 CA_P0035 Cbei_3832 CA_C3298 TTE0549 TTE0548 TTE0544 STHERM_c16300 Cthe_0423 Teth514_0627...”
- Fermentation of oxidized hexose derivatives by Clostridium acetobutylicum
Servinsky, Microbial cell factories 2014 - “...phosphotransacetylase, CA_C1742; 16) acetate kinase, CA_C1743; 17) hydroxybutyryl-CoA dehydrogenase, CA_C2009, CA_C2708; 18) crotonase, CA_C2012, CA_C2016, CA_C2712; 19) butyryl-CoA dehydrogenase, CA_C2711; 20) phosphotransbutyrylase, CA_C3076; 21) butyrate kinase, CA_C1660, CA_C3075; 22) galacturonate symporter, CA_C0694; 23) galacturonate isomerase, CA_C0692 24) altronate oxidoreductase, CA_C0695; 25) altronate dehydratase, CA_C0696; 26) 2-keto-3-deoxygluconokinase,...”
- Converting carbon dioxide to butyrate with an engineered strain of Clostridium ljungdahlii
Ueki, mBio 2014 - “...were amplified by PCR. The amplified genes were thl (NCBI GenBank; CA_C2873), crt (NCBI GenBank; CA_C2712), bcd (NCBI GenBank; CA_C2711), etfB (NCBI GenBank, CA_C2710), etfA (NCBI GenBank; CA_C2709), hbd (NCBI GenBank; CA_C2708), buk (NCBI GenBank; CA_C3075), and ptb (NCBI GenBank; CA_C3076). Primers used for the PCR...”
- Rapid construction of metabolic models for a family of Cyanobacteria using a multiple source annotation workflow
Mueller, BMC systems biology 2013 - “...acetobutylicum and the adhA gene in Synechocystis 6803. EC-gene relationships: 2.3.1.9: CA_C2873, 1.1.1.36: CA_C2708, 4.2.1.17: CA_C2712, 1.3.99.2: CA_C2711, 1.2.1.10: CA_P0035, 1.1.1.-: slr1192. The proposed workflow also served to complete unfinished pathways from i Cyt773. All five models are capable of converting galactose-1-phosphate to fructose-6-phosphate as in...”
- An optimized reverse β-oxidation pathway to produce selected medium-chain fatty acids in Saccharomyces cerevisiae
Garces, Biotechnology for biofuels and bioproducts 2023 - “...HBD ( C. acetobutylicum ) (UniProt ID: P52041), CRT ( C. acetobutylicum ) (UniProt ID: P52046) and TER ( T. denticola ) (UniProt ID: Q73Q47) were amplified by PCR from pVS6, TER ( E. gracilis ) (UniProt ID: Q5EU90) was PCR amplified from pVS1. All the...”
- SARS-CoV-2 N protein mediates intercellular nucleic acid dispersion, a feature reduced in Omicron.
Wu, iScience 2023 - “...database (version 2020.10). Furthermore, protein sequence FASTA from nucleoprotein (SwissProt: P0DTC9) and short-chain-enoyl-CoA hydratase (SwissProt: P52046) were added to the protein database. The spectra search criteria include 10ppm mass tolerance for precursor, 0.02Da for product ions, and trypsin enzyme specificity with up to 2 missed cleavages....”
- Cloning and characterization of the ferulic acid catabolic genes of Sphingomonas paucimobilis SYK-6
Masai, Applied and environmental microbiology 2002 - “...dehydratase of Clostridium acetobutylicum ATCC824 (P52046); MenB_Ecoli, naphthoate synthase of E. coli (P27290); MenB_Hinfl, naphthoate synthase...”
- Transcriptional analysis of micronutrient zinc-associated response for enhanced carbohydrate utilization and earlier solventogenesis in Clostridium acetobutylicum
Wu, Scientific reports 2015 - “...In terms of the expression of the pyruvate to butyryl-CoA formation genes, thlA (CAC2873), crt (CAC2712), etfA (CAC2709), etfB (CAC2710), and bcd (CAC2711) were differentially upregulated by no more than 1.75-fold. Surprisingly, thlB (CAC0078) encoding acetyl-CoA acetyltransferase was 0.65-fold downregulated compared to 1.46-fold upregulation of the...”
- Redox-responsive repressor Rex modulates alcohol production and oxidative stress tolerance in Clostridium acetobutylicum
Zhang, Journal of bacteriology 2014 - “...nadC asrT asrA asrB asrC CAP0035 CAC0267 CAC2873 CAC2712 CAC2711 CAC2710 CAC2709 CAC2708 CAC3076 CAC3075 CAC1025 CAC1024 CAC1023 CAC1512 CAC1513 CAC1514 CAC1515...”
- Meta-analysis and functional validation of nutritional requirements of solventogenic Clostridia growing under butanol stress conditions and coutilization of D-glucose and D-xylose
Heluane, Applied and environmental microbiology 2011 - “...CAC2235 CAC2388 CAC2389 CAC2390 CAC2634 CAC2708 CAC2711 CAC2712 CAC3164 CAC3170 CAC3348 CAC3462 CAC3596 CAC3680 CAC3681 0.40506 1.51803 1.07553 1.7949 2.70695...”
- A proteomic and transcriptional view of acidogenic and solventogenic steady-state cells of Clostridium acetobutylicum in a chemostat culture
Janssen, Applied microbiology and biotechnology 2010 - “...2.4 3.0 1.6 C CAC2711 bcd Butyryl-CoA dehydrogenase 2.0 1.8 6.1 2.4 3.1 2.0 I CAC2712 crt Enoyl-CoA hydratase 2.1 1.8 7.2 2.9 3.5 2.5 I CAC2810 Glucoamylase family protein 2.7 2.2 10.1 4.9 5.0 3.6 G CAC2873 thlA Acetyl-CoA acetyltransferase 2.3 1.7 8.1 3.5 3.9...”
- “...of acetyl-CoA to butyryl-CoA, e.g., thiolase A ( thlA , CAC2873), crotonase ( crt , CAC2712), butyryl-CoA dehydrogenase ( bcd , CAC2711), and the subunit of the electron transfer flavoprotein ( etfA , CAC2709). Otherwise, 3-hydroxybutyryl-CoA dehydrogenase ( hbd , CAC2708) and the second subunit of...”
- The role of PerR in O2-affected gene expression of Clostridium acetobutylicum
Hillmann, Journal of bacteriology 2009 - “...CAC2458 CAC2459 CAC2499 CAC2708 CAC2709 CAC2710 CAC2711 CAC2712 CAC2873 CAC3075 CAC3076 CAC3657 CAC3658 CAC3659 Arginine biosynthesis CAC0316 CAC0376 CAC0973...”
- “...CAC0711 to CAC0713, CAC2458 and CAC2459, CAC2708 to CAC2712, CAC3075 and CAC3076, CAC3657 to CAC3659, CAC0973 and CAC0974, and CAC2388 to CAC2391 are genes...”
- Transcriptional program of early sporulation and stationary-phase events in Clostridium acetobutylicum
Alsaker, Journal of bacteriology 2005 - “...formation genes thl (CAC2873), hbd (CAC2708), crt (CAC2712), etfA (CAC2709), etfB (CAC2710), and bcd (CAC2711) generally increased in stationary phase but...”
- Transcriptional analysis of spo0A overexpression in Clostridium acetobutylicum and its effect on the cell's response to butanol stress
Alsaker, Journal of bacteriology 2004 - “...stress are related to butyrate formation: crt (CAC2712, encoding crotonase) and ptb (CAC3076, encoding phosphate butyryltrans- ferase). A sugar symporter...”
- Overexpression of groESL in Clostridium acetobutylicum results in increased solvent production and tolerance, prolonged metabolism, and changes in the cell's transcriptional program
Tomas, Applied and environmental microbiology 2003 - “...in this cluster, including hexokinase (CAC2613) and crotonase (CAC2712). ftsA and ftsZ, which form a predicted bicistronic operon (CAC1692 and CAC1693) (39),...”
PGN_1175 putative enoyl-CoA hydratase from Porphyromonas gingivalis ATCC 33277
35% identity, 81% coverage
acuK / C8YX87 acryloyl-CoA hydratase/3-hydroxypropanoyl-CoA hydrolase (EC 3.1.2.4; EC 4.2.1.116) from Halomonas sp. HTNK1 (see paper)
30% identity, 80% coverage
I6J59_05415 short-chain-enoyl-CoA hydratase from Butyricimonas virosa
33% identity, 80% coverage
Cspa_c04330 short-chain-enoyl-CoA hydratase from Clostridium saccharoperbutylacetonicum N1-4(HMT)
34% identity, 78% coverage
Saci_1109 3-hydroxybutyryl-CoA dehydrogenase from Sulfolobus acidocaldarius DSM 639
32% identity, 37% coverage
CNBH0240 hypothetical protein from Cryptococcus neoformans var. neoformans B-3501A
29% identity, 84% coverage
Q70IM9 Putative enoyl-CoA hydratase I from Pseudomonas sp. Y2
32% identity, 79% coverage
Cbei_2034 3-hydroxybutyryl-CoA dehydratase from Clostridium beijerincki NCIMB 8052
34% identity, 78% coverage
CNAG_04531 enoyl-CoA hydratase from Cryptococcus neoformans var. grubii H99
30% identity, 84% coverage
- Cryptococcus neoformans resists to drastic conditions by switching to viable but non-culturable cell phenotype
Hommel, PLoS pathogens 2019 - “...Genes Corrected p value (FDR 1%) Fatty acid degradation CNAG_00490, CNAG_00524, CNAG_03019, CNAG_02489, CNAG_06628, CNAG_07747, CNAG_04531, CNAG_04688 1.20E-09 Valine, leucine and isoleucine degradation CNAG_00484, CNAG_00490, CNAG_00524, CNAG_03067, CNAG_06628, CNAG_04531, CNAG_04351, CNAG_04688 2.40E-08 Fatty acid metabolism CNAG_00490, CNAG_00524, CNAG_03019, CNAG_07747, CNAG_04531, CNAG_04688 9.50E-07 Propanoate metabolism CNAG_00797, CNAG_06628,...”
- “...CNAG_04351, CNAG_04217, CNAG_04688 4.00E-05 Biosynthesis of secondary metabolites CNAG_00484, CNAG_00490, CNAG_00524, CNAG_00797, CNAG_03067, CNAG_02489, CNAG_06628, CNAG_04531, CNAG_04217, CNAG_04688, CNAG_06431 2.60E-04 Peroxisome CNAG_00537, CNAG_03067, CNAG_03019, CNAG_06551, CNAG_07747 2.90E-04 Metabolic pathways CNAG_00484, CNAG_00490, CNAG_00524, CNAG_00797, CNAG_00826, CNAG_03067, CNAG_03019, CNAG_01540, CNAG_02489, CNAG_06628, CNAG_07747, CNAG_05653, CNAG_05303, CNAG_04531, CNAG_04351, CNAG_04217, CNAG_04688...”
CIBE_0339, X276_25220 short-chain-enoyl-CoA hydratase from Clostridium beijerinckii NRRL B-598
34% identity, 78% coverage
- Acidogenesis, solventogenesis, metabolic stress response and life cycle changes in Clostridium beijerinckii NRRL B-598 at the transcriptomic level
Patakova, Scientific reports 2019 - “...crt )- butyryl-CoA dehydrogenase ( bcd ) etfB etfA - 3-hydroxybutyryl-CoA dehydrogenase ( hbd ), (X276_25220 - X276_25200). Surprisingly, Genome2D operon prediction suggested another operon organisation and placed the last gene hbd (X276_25200) into a separate operon (operon_0155). Simultaneously, expression profiles showed high correlation of the...”
- Genome and transcriptome of the natural isopropanol producer Clostridium beijerinckii DSM6423
Máté, BMC genomics 2018 - “...dedicated to the production of butyryl-CoA from acetoacetyl-CoA seems to be organized in an operon (CIBE_0339 to 0343, Fig. 4 ) and are not regulated in our fermentation conditions. More interestingly, the 3 genes (CIBE_5186, CIBE _2196 and CIBE _1684) apparently involved in the pyruvate decarboxylation...”
CBY_3041 3-hydroxybutyryl-CoA dehydratase from Clostridium butyricum 5521
33% identity, 78% coverage
- Reduced catabolic protein expression in Clostridium butyricum DSM 10702 correlate with reduced 1,3-propanediol synthesis at high glycerol loading
Gungormusler-Yilmaz, AMB Express 2014 - “...0.36 0.59 0.00 0.22 CBY_2920 butyrate kinase 0.62 0.54 0.89 0.91 0.26 0.32 0.38 0.33 CBY_3041 3-hydroxybutyryl-CoA dehydratase 0.50 0.29 1.17 1.11 NQ NQ NQ NQ CBY_3042 acyl-coa dehydrogenase (short-chain specific) 0.20 0.25 0.90 0.60 0.06 0.06 0.96 0.94 CBY_3045 3-hydroxybutyryl-coa dehydrogenase 0.24 0.20 1.16 1.28...”
- “...CBY_1889 and 3642), FeFe hydrogenase (CBY_2300), acetyl CoA acetyltransferase (CBY_1290), 3-hydroxybutyryl-CoA dehydrogenase (CBY_3045), 3-hydroxybutyryl-coa dehydratase (CBY_3041), acyl-CoA dehydrogenase (CBY_3258 and 3042), phosphate butyryltransferase (CBY_2919), butyrate kinase (CBY_2920), butanol dehydrogenase (CBY_3747 and 3751), phosphate acetyltransferase (CBY_0205), acetate kinase (CBY_0206), lactate dehydrogenase (CBY_0742, 2341 and 2757), and ethanol...”
Clocel_2976 short-chain-enoyl-CoA hydratase from Clostridium cellulovorans 743B
32% identity, 80% coverage
- Clostridium cellulovorans Proteomic Responses to Butanol Stress
Costa, Frontiers in microbiology 2021 - “...to butyrate were down-regulated ( Figure 8 ). In addition, slight down-regulation of enoyl-CoA hydratase/isomerase (Clocel_2976) and butyrate kinase (Clocel_3674), although not statistically significant, provided a further evidence that the butyrate production pathway is repressed by butanol supplementation in C. cellulovorans . These data are inconsistent...”
- “...Clostridium Rex DNA binding element (TTGTTAANNNNTTAACAA) identified two motif instances upstream (23 and 88 from Clocel_2976 transcription start site) of the Clocel_2972-2976 gene cluster further supporting the hypothesis that Rex regulates its expression. Additional putative Rex binding motif instances were found upstream of acetyl-CoA acetyltransferase encoding...”
PP_2217 enoyl-CoA hydratase/isomerase FadB1x from Pseudomonas putida KT2440
29% identity, 79% coverage
- β-oxidation-polyhydroxyalkanoates synthesis relationship in Pseudomonas putida KT2440 revisited
Liu, Applied microbiology and biotechnology 2023 - “...analysis, and using KT2440 PhaJ homologues for the search, other hydratases, such as PP_3726, PP_1845, PP_2217, PP_2136 and PP_3284, PP_3491, PP_3925 were identified. We have detected PP_1845, PP_2217, PP_2136, PP_3925 and PP_3491 in the proteome of both the WT and sextuple mutant, albeit without a statistically...”
- “...with or without nitrogen limitation; Supplemental information). However, there is a trend of increase in PP_2217 expression in the sextuple mutant compared to the WT, but due to the variation among biological replicates, this was not found to be a statistically significant change. Discussion It this...”
- Integration of ARTP Mutation and Adaptive Laboratory Evolution to Reveal 1,4-Butanediol Degradation in Pseudomonas putida KT2440
Qian, Microbiology spectrum 2023 - “...aldehyde dehydrogenase ( peaE ), oxidoreductase (PP_3208, PP_2737, fadBA ), acetyl-CoA C-acyltransferase (PP_2215), enoyl-CoA hydratase (PP_2217), acetyl-CoA C-acyltransferase ( fadA , PP_2215, pcaF-II ), and especially the enzymes in GCL pathway ( Fig.3A ). Hence, this pathway and enhances GCL module do improve the BDO degradation....”
- When metabolic prowess is too much of a good thing: how carbon catabolite repression and metabolic versatility impede production of esterified α,ω-diols in Pseudomonas putida KT2440
Lu, Biotechnology for biofuels 2021 - “...( FadA : acetyl-CoA acetyltransferase (PP_2137, PP_2215), FadB : 3-hydroxyacyl-CoA dehydrogenase/enoyl-CoA hydratase (PP_2047, PP_2136, PP_2214, PP_2217), FadE : acyl-CoA dehydrogenase (PP_2048, PP_2216) [ 36 , 37 ] of -oxidation were deleted, generating P. putida BOX as a control strain. For alkyl acetate ester hydrolysis in P....”
- Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in Pseudomonas putida
Huertas-Rosales, Frontiers in molecular biosciences 2021 - “...Glutamine-hydrolyzing GMP synthase Purine metabolism PP_1073 glpD Aerobic glycerol-3-phosphate dehydrogenase PP_2080 gdhB NAD-specific glutamate dehydrogenase PP_2217 Enoyl-CoA hydratase PP_2437 Acyl-CoA dehydrogenase PP_2640 GNAT family acetyltransferase PP_2681 pqqD-II Pyrroloquinoline quinone biosynthesis chaperone PP_4571 cysK Cysteine synthase K Cysteine biosynthesis PP_5003 phaA poly (3-hydroxyalkanoate) polymerase Synthesis of carbon/energy...”
- Fatty Acid and Alcohol Metabolism in Pseudomonas putida: Functional Analysis Using Random Barcode Transposon Sequencing
Thompson, Applied and environmental microbiology 2020 (secret) - Metabolic engineering of Pseudomonas putida for increased polyhydroxyalkanoate production from lignin
Salvachúa, Microbial biotechnology 2020 - “...loci PP_22142217, where FadB is encoded at two separate coding regions PP_2214 (3hydroxyacylCoA dehydrogenase) and PP_2217 (enoylCoA hydratase) while FadA is encoded at PP_2215. This putative operon also encodes an acylCoA dehydrogenase ( fadE ; PP_2216). These two gene clusters, PP_21362137 and PP_22142217, were deleted in...”
Dred_0401 Enoyl-CoA hydratase/isomerase from Desulfotomaculum reducens MI-1
35% identity, 79% coverage
MAP1017c EchA8_1 from Mycobacterium avium subsp. paratuberculosis str. k10
31% identity, 80% coverage
- Lymphoproliferative and gamma interferon responses to stress-regulated Mycobacterium avium subsp. paratuberculosis recombinant proteins
Gurung, Clinical and vaccine immunology : CVI 2014 - “...MAP0187c MAP2487c MAP3393c MAP3268 MAP1560 MAP1588c MAP1589c MAP1017c Superoxide dismutase Carbonic anhydrase IMP biosynthesis Heat shock proteins 18_3 and 18_2...”
- “...other four recombinant antigens (MAP2487c, MAP3393c, MAP3268, and MAP1017c). The IFN- response to the majority of the antigens was stronger in the vaccinated or...”
- Antigenicity of recombinant maltose binding protein-Mycobacterium avium subsp. paratuberculosis fusion proteins with and without factor Xa cleaving
Gurung, Clinical and vaccine immunology : CVI 2013 - “...MAP0184c, MAP1586, MAP3555, MAP3864 MAP0508, MAP0516c, MAP1017c, MAP2698c, MAP2872c, MAP3190, MAP3577, MAP3651c MAP0187c, MAP0540, MAP1560, MAP1885c, MAP2411,...”
- “...performed with MBP fusion proteins (MAP0435c, MAP1846c, and MAP1017c) to determine the optimal time for enzymatic cleavage of the M. avium subsp....”
- In silico identification of epitopes in Mycobacterium avium subsp. paratuberculosis proteins that were upregulated under stress conditions
Gurung, Clinical and vaccine immunology : CVI 2012 - “...of intermediate-affinity binding. Five proteins (MAP1589c, MAP4340, MAP1017c, MAP3974c, and MAP3268) did not reveal any epitopes with intermediate- or...”
- “...to stress conditions Mass (kDa) MAP0187c MAP0540 MAP1017c MAP1168c MAP1297 MAP1560 MAP1588c MAP1589c MAP1653 MAP1698c MAP1834c MAP2058c MAP2312c MAP2487c...”
Q7JR58 Enoyl-CoA hydratase, mitochondrial from Drosophila melanogaster
31% identity, 80% coverage
AUO97_RS14195 enoyl-CoA hydratase-related protein from Acinetobacter baumannii
32% identity, 82% coverage
- Mutation in the two-component regulator BaeSR mediates cefiderocol resistance and enhances virulence in Acinetobacter baumannii
Liu, mSystems 2023 - “...<0.0001 AUO97_RS14185 Phenylacetate-CoA oxygenase subunit PaaJ 2.213 <0.0001 AUO97_RS14190 Phenylacetate-CoA oxygenase/reductase subunit PaaK 1.891 <0.0001 AUO97_RS14195 Enoyl-CoA hydratase 1.944 <0.0001 AUO97_RS14200 2-(1,2-epoxy-1,2-dihydrophenyl) acetyl-CoA isomerase 1.607 <0.0001 AUO97_RS14205 3-hydroxyacyl-CoA dehydrogenase 1.478 <0.0001 AUO97_RS19215 CsuA/B 2.057 0.0014 ATCC17978 BaeR S104N AUO97_RS10785 MFS transporter 1.049 <0.0001 AUO97_RS19200 Molecular chaperone...”
- The abaI/abaR Quorum Sensing System Effects on Pathogenicity in Acinetobacter baumannii
Sun, Frontiers in microbiology 2021 - “...( paaB ), AUO97_RS14180 ( paaC ), AUO97_RS14185 ( paaD ), AUO97_RS14190 ( paaE ), AUO97_RS14195 ( paaF ), and AUO97_RS14215 ( paaK1 ) were highly expressed ( Figure 8A ), and the expression of this operon was not changed in the abaIR mutant. Branched-chain amino...”
- “..., the abaIR mutant enhances slightly more virulent than abaI . In the abaI mutant, AUO97_RS14195, AUO97_RS16430, AUO97_RS06660, AUO97_RS18630, and AUO97_RS12705 involved in the propanoate metabolism pathway were upregulated. In the abaIR mutant, AUO97_RS14380, AUO97_RS14375, and AUO97_RS14370 involved in the propanoate metabolism pathway were upregulated. Lipids...”
PFLU3030 putative phenylacetic acid degradation enoyl-CoA hydratase from Pseudomonas fluorescens SBW25
32% identity, 80% coverage
SMc01153 PROBABLE ENOYL COA HYDRATASE PROTEIN from Sinorhizobium meliloti 1021
31% identity, 80% coverage
TTHA1434 3-hydroxybutyryl-CoA dehydratase from Thermus thermophilus HB8
32% identity, 82% coverage
XP_008485588 enoyl-CoA hydratase domain-containing protein 3, mitochondrial-like from Diaphorina citri
49% identity, 40% coverage
A9762_23740 enoyl-CoA hydratase from Pandoraea sp. ISTKB
31% identity, 80% coverage
F502_06297 short-chain-enoyl-CoA hydratase from Clostridium pasteurianum DSM 525 = ATCC 6013
29% identity, 80% coverage
Rv1070c enoyl-CoA hydratase from Mycobacterium tuberculosis H37Rv
30% identity, 80% coverage
- Revolutionizing control strategies against Mycobacterium tuberculosis infection through selected targeting of lipid metabolism
Kim, Cellular and molecular life sciences : CMLS 2023 - “...H, Capreomycin drrA, drrB, drrC rv2936-2938 VAN Down echA8 rv1070c H, Capreomycin Up echA12 rv1472 H Up fabD rv2243 H, Thiolactomycin Up R Down fadD2 rv0270 H...”
- Immunogenicity of Mycobacterial Extracellular Vesicles Isolated From Host-Related Conditions Informs About Tuberculosis Disease Status
Schirmer, Frontiers in microbiology 2022 - “...Rv2244 AcpM 1.2 Rv0824c DesA1 0.56 Rv2831 EchA16 1.08 Rv3800c Pks13 0.54 Rv0675 EchA5 1.07 Rv1070c EchA8 0.51 Rv0642c MmaA4 0.72 Information pathways 93 Rv0723 RpIO 1.18 41 Rv0054 Ssb 1.73 Rv0054 Ssb 1.06 Rv0716 RpIE 1.23 Rv2904c RpIS 1 Rv0714 RpIN 1.21 Rv0714 RpIN 0.86...”
- Proteomic profiling of Mycobacterium tuberculosis identifies nutrient-starvation-responsive toxin-antitoxin systems
Albrethsen, Molecular & cellular proteomics : MCP 2013 - “...proteins were identified in more than one spot. In one protein spot (#1464), two proteins (Rv1070c and Rv2716) were identified. Fig. 3. Representative two-dimensional DIGE image of culture filtrate proteins from log phase and starvation conditions. The total amount of protein used for CyDye labeling was...”
- ald of Mycobacterium tuberculosis encodes both the alanine dehydrogenase and the putative glycine dehydrogenase
Giffin, Journal of bacteriology 2012 - “...Rv1133c DnaK HspX Acg Ald Hrp1 MetE Rv1070c EchA8 Heat shock 70-kDa protein -Crystallin/URB-1 Unknown function L-Alanine dehydrogenase Hypoxic response protein...”
- The TB Structural Genomics Consortium: a decade of progress
Chim, Tuberculosis (Edinburgh, Scotland) 2011 - “.... We have determined the atomic level structure of the prokaryotic crotonase from Mtb , Rv1070c (manuscript in preparation). The overall fold of the prokaryotic crotonase is similar to the eukaryotic crotonase. The oligomerization state of the Mtb crotonase is that of hexamers and nonamers as...”
AR1Y2_1116 enoyl-CoA hydratase-related protein from Anaerostipes rhamnosivorans
32% identity, 78% coverage
- Conversion of dietary inositol into propionate and acetate by commensal Anaerostipes associates with host health
Bui, Nature communications 2021 - “...including a 3-oxoacid CoA transferase (OxcT encoded by AR1Y2_1115), an enoyl-CoA dehydratase (AcaD encoded by AR1Y2_1116) and an acyl dehydrogenase (EcdH encoded by AR1Y2_1117) and acyl dehydrogenase complex (AcaD-Etf encoded by AR1Y2_1050-1052). CO 2 /H 2 or formate is also formed from a conversion of pyruvate...”
- “...(OxcT encoded by AR1Y2_1115), acyl-CoA dehydrogenase (AcaD encoded by AR1Y2_1117), enoyl-CoA hydratase (EcdH encoded by AR1Y2_1116) and acryloyl-CoA dehydrogenase/Etf (AcaD-Etf encoded by AR1Y2_1050-1052 ) . Interestingly, oxcT, ecdH and acaD (AR1Y2_1115-1117) were located in a putative operon. The 3-oxoacid CoA transferase protein (OxcT encoded by AR1Y2_1115)...”
3h81A / P9WNN9 Crystal structure of enoyl-coa hydratase from mycobacterium tuberculosis (see paper)
30% identity, 80% coverage
- Ligand: calcium ion (3h81A)
PFL_3064 enoyl-CoA hydratase/isomerase FadB1x from Pseudomonas fluorescens Pf-5
30% identity, 80% coverage
PHATRDRAFT_55192 hydratase enyol-coa hydratase from Phaeodactylum tricornutum CCAP 1055/1
32% identity, 82% coverage
- Examination of metabolic responses to phosphorus limitation via proteomic analyses in the marine diatom Phaeodactylum tricornutum
Feng, Scientific reports 2015 - “...but also supplied P for cell growth. Also, we observed the downregulation of enoyl-CoA hydratase (PHATRDRAFT_55192), which is responsible for hydrating the double bond between the second and third carbons on acyl-CoA, also known as crotonase important in catalyzing fatty acids to produce acetyl-CoA and energy...”
- “...(PHATRDRAFT_20342) and adenylosuccinate synthase (PHATRDRAFT_26256) involved in alanine, aspartate and glutamate metabolism, and enoyl-CoA hydratase (PHATRDRAFT_55192) involved in tryptophan metabolism. Among these, downregulation of glutamate synthase would cause a reduction of glutamate which plays an important role in transamination of amino acids in amino acid metabolism...”
Q9NEZ8 Enoyl-CoA hydratase, mitochondrial from Caenorhabditis elegans
30% identity, 80% coverage
Ccar_RS01400 short-chain-enoyl-CoA hydratase from Clostridium carboxidivorans P7
31% identity, 82% coverage
Swol_2031 3-hydroxybutyryl-CoA dehydratase from Syntrophomonas wolfei subsp. wolfei str. Goettingen
33% identity, 80% coverage
- Dynamic acylome reveals metabolite driven modifications in Syntrophomonas wolfei
Fu, Frontiers in microbiology 2022 - “...Swol_2126 117 K2(Acetyl) AKHIVSFAFTEPGTGSDPK 2 Swol_2126 214 K3(Acetyl) DVKVPADNLLGK 2 Swol_2126 273 K6(Acetyl) GQPIAKFQAIQLK 3 Swol_2031 197 K18(Acetyl) IGLVNHVYPADQLMDEAKK 3 Swol_2031 202 K4(Acetyl, 3- Hydroxybutyryl) IANKAPLAVGYAK 3 Swol_2,129 15 K3(Acetyl) LEKGILLVSLNRPEK 4 Swol_0435 52, 56 K1(Acetyl); K5(Butyryl) KAVEKGK 4 Swol_0435 172 K23(Acetyl) LVEVIPGAETSEAVSSAIVELCKK 4 Swol_0791 28...”
MAB_2058 Probable enoyl-CoA dehydratase/isomerase from Mycobacterium abscessus ATCC 19977
32% identity, 83% coverage
YdbR / b1393 putative 2,3-dehydroadipyl-CoA hydratase (EC 4.2.1.17) from Escherichia coli K-12 substr. MG1655 (see 7 papers)
PAAF_ECOLI / P76082 2,3-dehydroadipyl-CoA hydratase; Enoyl-CoA hydratase; EC 4.2.1.17 from Escherichia coli (strain K12) (see 4 papers)
P76082 enoyl-CoA hydratase (EC 4.2.1.17) from Escherichia coli (see paper)
NP_415911 putative 2,3-dehydroadipyl-CoA hydratase from Escherichia coli str. K-12 substr. MG1655
b1393 enoyl-CoA hydratase-isomerase from Escherichia coli str. K-12 substr. MG1655
32% identity, 79% coverage
- function: Catalyzes the reversible conversion of enzymatically produced 2,3-dehydroadipyl-CoA into 3-hydroxyadipyl-CoA.
catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
catalytic activity: a 4-saturated-(3S)-3-hydroxyacyl-CoA = a (3E)-enoyl-CoA + H2O (RHEA:20724)
disruption phenotype: Mutants accumulate delta3-dehydroadipate and are unable to use phenylacetate as a carbon source. - Protein-protein interactions in the β-oxidation part of the phenylacetate utilization pathway: crystal structure of the PaaF-PaaG hydratase-isomerase complex.
Grishin, The Journal of biological chemistry 2012 - GeneRIF: Data indicate that the PaaFG complex has a four-layered structure composed of homotrimeric discs of PaaF and PaaG.
- Genetic dissection of the degradation pathways for the mycotoxin fusaric acid in Burkholderia ambifaria T16
Vinacour, Applied and environmental microbiology 2023 (secret) - On the Enigma of Glutathione-Dependent Styrene Degradation in Gordonia rubripertincta CWB2
Heine, Applied and environmental microbiology 2018 - “...Accession no. BAL04135 Q9L9C1 P76081 P76080 P76079 P76078 P76077 P77467 P76083 P76082 P0C7L2 A0R4Z6 P77455 P43491 P76084 % ID 76 68 43 42 42 67 66 37 36 36 55...”
- Catabolism of the Last Two Steroid Rings in Mycobacterium tuberculosis and Other Bacteria.
Crowe, mBio 2017 - “...1330 12450 e Short-chain-type dehydrogenase/reductase A6CQL2 34 echA20 Rv3550 RS27700 6001 1280 00335 HIEC-CoA hydrolase P76082 (1,4-dihydroxy-2-naphthoyl-CoA synthase [MenB]) 28 ipdA Rv3551 RS22695 6002 1276 00310 COCHEA-CoA hydrolase, subunit Q59111 (glutaconate CoA-transferase, subunit) 26 ipdB Rv3552 RS22690 6003 1277 00315 COCHEA-CoA hydrolase, subunit Q59111 (glutaconate CoA-transferase,...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...Q8ZR85, Q8ZL15, P40811, Q9L6T2, Q93IM7), Crotonase family (P23966, P40805, P40802, O07533, O34893, P94549, O32178, P0ABU0, P76082, P21177, P77399, P31551, P52045, P77467, P76082, Q9I498, Q9I002, Q9I393, Q9HY35, Q9HZJ2, Q9I300, Q9HZV7, Q9I298, Q9I5I5, Q9HW71, Q9HUI5, Q9I2S4, Q9I5I4, Q9I4V3, Q9I2Y9, Q9I076, Q9HYH9, Q9L6L5, Q8ZNA7, Q82RX5, Q7CQ56). Sequence pairs were...”
- Exploring functionality of the reverse β-oxidation pathway in Corynebacterium glutamicum for production of adipic acid
Shin, Microbial cell factories 2021 - “...engineered C. glutamicum For trans -2-hexenedioic acid biosynthesis in C. glutamicum , PaaF (KEGG ID: b1393) from E. coli [ 50 ] was added to pZ8-paaH-tesB-paaJ. The resulting vector was named pZ8-paaH-tesB-paaJF and transformed into C. glutamicum . PaaF from E . coli catalyzes the dehydration...”
- Tracing the phylogenetic history of the Crl regulon through the Bacteria and Archaea genomes
Santos-Zavaleta, BMC genomics 2019 - “...CRP (+), IHF (+), PaaX () + MSI [ 10 ] phenylacetate catabolic process paaD b1393 paaAB C D E F G H IJ K CRP (+), IHF (+), PaaX () + MSI [ 10 ] phenylacetate catabolic process paaF b1395 paaAB C D E F...”
- FLIM-MAP: Gene Context Based Identification of Functional Modules in Bacterial Metabolic Pathways
Bhatt, Frontiers in microbiology 2018 - “...metabolic pathways like Butanoate metabolism and Fatty acid metabolism. Therefore, the two genes (b1395 and b1393, respectively, in E. coli K12 MG1655) are also included as part of the above mentioned pathways in homology based methods (KEGG, MetaCyc etc.). KEGG maps b1393 and b1395 to Butanoate...”
- “...(KEGG, MetaCyc) annotate the pathway incorrectly in such cases. On the contrary, since the genes (b1393 and b1395) would only lie in within paa gene cluster, FLIM-MAP would lead to an appropriate assignment of these genes exclusively to the Phenylacetate to Succinyl-CoA Metabolism where they actually...”
- Genomic content typifying a prevalent clade of bovine mastitis-associated Escherichia coli
Goldstone, Scientific reports 2016 - “...activator for tynA and feaB 100 82.1 2 b1385 feaB phenylacetaldehyde dehydrogenase 100 82.2 2 b1393 paaF 2,3-dehydroadipyl-CoA hydratase 100 79.2 2 b1394 paaG 1,2-epoxyphenylacetyl-CoA isomerase, oxepin-CoA-forming 100 76.7 2 b1395 paaH 3-hydroxyadipyl-CoA dehydrogenase, NAD+-dependent 98.5 76.0 2 b1396 paaI hydroxyphenylacetyl-CoA thioesterase 98.5 76.6 2 b1397...”
- 18th Congress of the European Hematology Association, Stockholm, Sweden, June 13–16, 2013
, Haematologica 2013 - Identification and mapping of self-assembling protein domains encoded by the Escherichia coli K-12 genome by use of lambda repressor fusions
Mariño-Ramírez, Journal of bacteriology 2004 - “...b4119 b3929 b3939 b0349 b0783 b4351 b0091 b2733 b2286 b1393 b1396 b0134 b3019 b2564 b4100 b1020 b3724 b0951 b4201 b0467 b0386 b0333 b1304 b1303 b3763 b3947...”
echA mitochondrial enoyl-CoA hydratase from Emericella nidulans (see paper)
32% identity, 85% coverage
- CharProtDB Description: Mitochondrial enoyl-CoA hydratase, involved in fatty acid beta-oxidation; required for growth on short-chain fatty acids and for catabolism of isoleucine and valine; transcription is induced by fatty acids; Source:AspGD
X276_16680 short-chain-enoyl-CoA hydratase from Clostridium beijerinckii NRRL B-598
33% identity, 78% coverage
FNP_0790 enoyl-CoA hydratase-related protein from Fusobacterium polymorphum ATCC 10953
32% identity, 82% coverage
- Genome sequence of Fusobacterium nucleatum subspecies polymorphum - a genetically tractable fusobacterium
Karpathy, PloS one 2007 - “...in S. flexneri [74] , [75] . The strain also carries genes for butyrate fermentation (FNP_0790, 0791, 0969, 0970, 0971, 1762 and either 1467 or 2146). The production of butyrate has been associated with mouth odor and gingival inflammation [76] . We also include FipA (described...”
- “...domain protein FNP_1921 2263322 2265424 vacB ribonuclease R Butyrate fermentation FNP_2146 62092 60956 butyryl-CoA dehydrogenase FNP_0790 1158356 1159132 3-hydroxybutyryl-CoA dehydratase FNP_0791 1159148 1159987 fadB 3-hydroxybutyryl-CoA dehydrogenase FNP_0969 1326816 1326151 atoA butyrate-acetoacetate CoA-transferase, beta subunit FNP_0970 1327487 1326834 atoD butyrateacetoacetate CoA-transferase, alpha subunit FNP_0971 1329020 1327641 atoE...”
GSU1377 3-hydroxybutyryl-CoA dehydratase from Geobacter sulfurreducens PCA
33% identity, 81% coverage
Bd1852 hypothetical protein from Bdellovibrio bacteriovorus HD100
33% identity, 80% coverage
ANACAC_03496 hypothetical protein from Anaerostipes caccae DSM 14662
31% identity, 78% coverage
XNRR2_0150 enoyl-CoA hydratase from Streptomyces albidoflavus
30% identity, 80% coverage
ELI_0538, KR505_10040 enoyl-CoA hydratase-related protein from Eubacterium callanderi
33% identity, 81% coverage
- Biosynthesis of butyrate from methanol and carbon monoxide by recombinant Acetobacterium woodii
Chowdhury, International microbiology : the official journal of the Spanish Society for Microbiology 2022 - “...KIST612 harbors the genes encoding thiolase ( thlA , ELI_0537), 3-hydroxybutyryl-CoA dehydrogenase ( hbd , ELI_0538), crotonase ( crt , ELI_0539), and the electron bifurcating butyryl-CoA dehydrogenase complex ( bcd/etfAB , ELI_0540-0542). While the genes of the butyrate pathway are clustered in a single gene cluster,...”
- Gut Microbiota Eubacterium callanderi Exerts Anti-Colorectal Cancer Activity
Ryu, Microbiology spectrum 2022 - “...electron transfer flavoprotein subunit beta (KR505_10025); Hbd , hydroxybutyryl dehydrogenase (KR505_10035); Cro , crotonase/enoyl-CoA hydratase (KR505_10040); Thl , acetyl-CoA C-acetyltransferase (KR505_10045). (B) Series of genes related to GABA biosynthesis. GadC , glutamate/gamma-aminobutyrate antiporter (KR505_12475); GadB , glutamate decarboxylase (KR505_12480); GdhA , glutamate dehydrogenase (NADP + )...”
- Energy Conservation Model Based on Genomic and Experimental Analyses of a Carbon Monoxide-Utilizing, Butyrate-Forming Acetogen, Eubacterium limosum KIST612
Jeong, Applied and environmental microbiology 2015 - “...(thlA, ELI_0537), 3-hydroxybutyryl-CoA dehydrogenase (hbd, ELI_0538), crotonase (crt, ELI_0539), and butyryl-CoA dehydrogenase (bcd, ELI_0540) (Fig. 6A)....”
TRIVIDRAFT_87842 uncharacterized protein from Trichoderma virens Gv29-8
30% identity, 85% coverage
- Transcriptome Dynamics Underlying Chlamydospore Formation in Trichoderma virens GV29-8
Peng, Frontiers in microbiology 2021 - “...differentially expressed ( Supplementary Table 23 ), including genes encoding acetyl-CoA C-acetyltransferase (TRIVIDRAFT_169943), enoyl-CoA hydratase (TRIVIDRAFT_87842), acetyl-CoA carboxylase (TRIVIDRAFT_78374), fatty acid synthase subunit beta, fungi type (TRIVIDRAFT_171412), fatty acid elongase 3 (TRIVIDRAFT_82162) and acetyl-CoA acyltransferase 1 (TRIVIDRAFT_80821). Genes related to lipid metabolism were differentially expressed in...”
- “...Figure 7B ). In these two modules, metabolic and oxidation-reduction genes were dominant. Enoyl-CoA hydratase (TRIVIDRAFT_87842), glucan endo-1,3-beta-D-glucosidase (TRIVIDRAFT_111476), glucanase (TRIVIDRAFT_89797) and phosphoglucomutase (TRIVIDRAFT_87728) were included ( Supplementary Table 16 , 17 ). The fatty acid degradation (tre00071) pathway was enriched in the dark red and...”
CRCH_SYNWW / Q0AVM1 Crotonyl-CoA hydratase; EC 4.2.1.150 from Syntrophomonas wolfei subsp. wolfei (strain DSM 2245B / Goettingen) (see paper)
Swol_1936 3-hydroxybutyryl-CoA dehydratase from Syntrophomonas wolfei subsp. wolfei str. Goettingen
33% identity, 78% coverage
- function: Involved in syntrophic growth of S.wolfei with butyrate, as part of the butyrate oxidation pathway. Probably catalyzes the hydration of crotonyl-CoA to 3-hydroxybutyryl-CoA.
catalytic activity: 3-hydroxybutanoyl-CoA = (2E)-butenoyl-CoA + H2O (RHEA:45584)
catalytic activity: a short-chain (3S)-3-hydroxyacyl-CoA = a short-chain (2E)- enoyl-CoA + H2O (RHEA:52664)
subunit: Homotetramer. - Proteomic analysis reveals metabolic and regulatory systems involved in the syntrophic and axenic lifestyle of Syntrophomonas wolfei
Sieber, Frontiers in microbiology 2015 - “...interspecies interactions (Supplemental Table 2 ). Two proteins have annotated functions in beta-oxidation (Swol_1935 and Swol_1936 gene products) and one has an annotated function in poly-(3-hydroxyalkanoate) synthesis [poly-(3-hydroxyalkanoic acid) synthase, Swol_1241 gene product]. Two proteins with unknown function (Swol_1036 and Swol_2364 gene products) were detected. Swol_1036...”
- A proteomic view at the biochemistry of syntrophic butyrate oxidation in Syntrophomonas wolfei
Schmidt, PloS one 2013 - “...that is attributed to act as EtfAB:quinone oxidoreductase (see Discussion ). The crotonyl-CoA hydratase gene Swol_1936 in the gene cluster Swol_1933-36 was identified by the prominent spot E14 ( Fig. 2AB ), and the NAD-dependent 3-hydroxybutyryl-CoA dehydrogenase gene Swol_1935 by two prominent protein spots, E18 and...”
- Involvement of NADH:acceptor oxidoreductase and butyryl coenzyme A dehydrogenase in reversed electron transport during syntrophic butyrate oxidation by Syntrophomonas wolfei
Müller, Journal of bacteriology 2009 - “...not shown), i.e., enoylCoA hydratase (Swol_1936), 3-hydroxyacyl-CoA dehydrogenase (Swol_1935), and acetyl-CoA C-acyltransferases (Swol_ 1934 and Swol_2051)....”
CD1057 3-hydroxybutyryl-CoA dehydratase from Clostridium difficile 630
CD630_10570, CDIF630erm_01197 enoyl-CoA hydratase-related protein from Clostridioides difficile 630
31% identity, 82% coverage
- Adaptive strategies and pathogenesis of Clostridium difficile from in vivo transcriptomics
Janoir, Infection and immunity 2013 - “...acetyltransferase; CD1058, 3-hydroxybutyryl-CoA-dehydrogenase; CD1057, 3-hydroxybutyryl-CoA dehydratase; CD1054, butyryl-CoA dehydrogenase; CD1055-CD1056,...”
- Effect of an oxygen-tolerant bifurcating butyryl coenzyme A dehydrogenase/electron-transferring flavoprotein complex from Clostridium difficile on butyrate production in Escherichia coli
Aboulnaga, Journal of bacteriology 2013 - “...(CD1056, etfA2), crotonase (EC 4.2.1.17) (CD1057, crt2), 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) (CD1058, hbd), and acetyl-CoA C-acetyltransferase...”
- Global transcriptional control by glucose and carbon regulator CcpA in Clostridium difficile
Antunes, Nucleic acids research 2012 - “...adhE (CD2966) and CD3006, aldehyde-alcohol dehydrogenase; thlA (CD1059), acetyl-CoA acetyltransferase; hbd (CD1058), 3-hydroxybutyryl-CoA dehydrogenase; crt2 (CD1057), 3-hydroxybutyryl-CoA dehydratase; cat1 (CD2343), succinyl-CoA: coenzyme A transferase; sucD (CD2342), succinate-semialdehyde dehydrogenase; 4hbd (CD2338), 4-hydroxybutyrate dehydrogenase; cat2 (CD2339), 4-hydroxybutyrate CoA transferase; abfD (CD2341), vinylacetyl-coa--isomerase; bcd2 (CD1054), butyryl-CoA dehydrogenase; etfBA (CD1055CD1056),...”
- The WalRK Two-Component System Is Essential for Proper Cell Envelope Biogenesis in Clostridioides difficile
Müh, Journal of bacteriology 2022 - “...flavoprotein beta 1.78 2.11 1.07 cd630_10560 10560 etfA Electron transfer flavoprotein alpha 1.95 2.18 1.10 cd630_10570 10570 crt2 3-Hydroxybutyryl-CoA dehydratase 1.96 2.27 1.06 cd630_31000 31000 C4-dicarboxylate anaerobic carrier 1.88 2.59 NC Membrane cd630_30990 30990 Amidohydrolase 1.80 2.47 NC Membrane cd630_10580 10580 hbd 3-Hydroxybutyryl-CoA dehydrogenase 1.86 2.05...”
- Iron Regulation in Clostridioides difficile
Berges, Frontiers in microbiology 2018 - “...OFF -7.70 OFF CD630_10560 CDIF630erm_01196 etfA Electron transfer flavoprotein subunit alpha -6.75 OFF -7.75 OFF CD630_10570 CDIF630erm_01197 crt2 3-hydroxybutyryl-CoA dehydratase -6.37 -7.48 OFF CD630_10580 CDIF630erm_01198 hbd 3-hydroxybutyryl-CoA dehydrogenase -5.21 OFF -5.97 OFF CD630_10590 CDIF630erm_01199 thlA1 Acetyl-CoA acetyltransferase -6.22 OFF -6.43 OFF CD630_29660 CDIF630erm_03250 adhE Bifunctional acetaldehyde-CoA/alcohol...”
- “...-7.70 OFF CD630_10560 CDIF630erm_01196 etfA Electron transfer flavoprotein subunit alpha -6.75 OFF -7.75 OFF CD630_10570 CDIF630erm_01197 crt2 3-hydroxybutyryl-CoA dehydratase -6.37 -7.48 OFF CD630_10580 CDIF630erm_01198 hbd 3-hydroxybutyryl-CoA dehydrogenase -5.21 OFF -5.97 OFF CD630_10590 CDIF630erm_01199 thlA1 Acetyl-CoA acetyltransferase -6.22 OFF -6.43 OFF CD630_29660 CDIF630erm_03250 adhE Bifunctional acetaldehyde-CoA/alcohol dehydrogenase...”
ferB2 / Q8RR26 feruloyl-CoA hydratase/lyase from Sphingomonas paucimobilis (see paper)
ferB2 / BAB86296.1 feruloyl-CoA hydratase/lyase from Sphingomonas paucimobilis (see paper)
30% identity, 80% coverage
BP0627 probable enoyl-CoA hydratase/isomerase from Bordetella pertussis Tohama I
33% identity, 81% coverage
- Avirulent phenotype promotes Bordetella pertussis adaptation to the intramacrophage environment
Farman, Emerging microbes & infections 2023 - “...amino acids, required for the metabolism of fatty acids (acetyl-CoA synthetase BP0661 , enoyl-CoA hydratases BP0627 and BP0662 , and long-chain fatty acid ligase fadD ), and for phenylacetic acid catabolic pathway ( BP2675BP2684 ), was significantly increased. Large part of the BvgAS regulon is modulated...”
- Comparative Omics Analysis of Historic and Recent Isolates of Bordetella pertussis and Effects of Genome Rearrangements on Evolution
Dienstbier, Emerging infectious diseases 2021 - “...Group_2206 BP0624 2.2 2.5 Substrate-CoA ligase toh_00607 Group_2604 BP0625 2.3 3.3 Acyl-CoA dehydrogenase toh_00609 Group_2725 BP0627 2.0 3.3 Enoyl-CoA hydratase/isomerase toh_00610 Group_895 BP0628 2.4 2.8 Pyruvate dehydrogenase component toh_00611 pdhA BP0629 2.3 2.8 Pyruvate dehydrogenase component toh_01576 Group_23 WP_003811211.1 6.8 3.3 Capsular biosynthesis protein toh_01584 wza...”
- The multifaceted RisA regulon of Bordetella pertussis
Coutte, Scientific reports 2016 - “...to non-modulated BPSM ( Fig. 3 ). Only 6 genes fall in this cluster ( bp0627, bp0628, bp1704, bp2496, bp3501, bp3871 ), all of unknown function. Based on their expression in modulated BPSM, these genes would be classified as vrg s. However, their expression does not...”
BC4524 3-hydroxybutyryl-CoA dehydratase from Bacillus cereus ATCC 14579
30% identity, 83% coverage
acuH / Q5LWT8 acryloyl-CoA hydratase (EC 4.2.1.116) from Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3) (see 2 papers)
SPO0147, SPO_RS00755 enoyl-CoA hydratase from Ruegeria pomeroyi DSS-3
31% identity, 80% coverage
- Oxidative Stress Regulates a Pivotal Metabolic Switch in Dimethylsulfoniopropionate Degradation by the Marine Bacterium Ruegeria pomeroyi
Wang, Microbiology spectrum 2022 - “...pomeroyi DSS-3. Genes: dmdA (SPO_RS09710), dmdB (SPO_RS10375, SPO_RS03420), dmdC (SPO_RS19300, SPO_RS01515, SPO_RS14785), dmdD (SPO_RS19305), acuH (SPO_RS00755), adlH (SPO_RS00490), mtoX (SPO_RS21180), dddP (SPO_RS11655), dddQ (SPO_RS22175), dddW (SPO_RS02290), prpE SPO_RS14880), and acuI (SPO_RS09715). RESULTS AND DISCUSSION Establishment of chemostat conditions. One goal of the planned studies was to...”
- Metabolism of dimethylsulphoniopropionate by Ruegeria pomeroyi DSS-3
Reisch, Molecular microbiology 2013 (PubMed)- “...also rapidly hydrated to 3-hydroxypropionyl-CoA by acryloyl-CoA hydratase (SPO0147). A SPO1914 mutant was unable to grow on acrylate as the sole carbon source,...”
- “...forming 3-hydroxypropionyl-CoA is catalysed by acryloyl-CoA hydratase (SPO0147). labelling patterns of amino acids and nucleosides following growth on [1-13C]...”
- Transcriptional changes underlying elemental stoichiometry shifts in a marine heterotrophic bacterium
Chan, Frontiers in microbiology 2012 - “...( norQ ) 2.2 0.1 SPOA0220 Cytochrome cd1 nitrite reductase ( nirS ) 0.2 P-LIMITED SPO0147 Enoyl-CoA hydratase 4.3 3.0 SPO0304 Lipoprotein, putative 7.0 5.4 SPO0468 Alkylphosphonate utilization protein ( phnG ) 5.2 SPO0472 Phosphonate C-P lyase system protein ( phnK ) 10.9 SPO0781 Phosphonate ABC...”
- “...transporter, periplasmic binding protein 6.6 SPOA0399 R body protein RebB-like protein 5.6 P-LIMITED (20 GENES) SPO0147 Enoyl-CoA hydratase 4.3 3.0 SPO0304 Putative lipoprotein 7.0 5.4 SPO0468 phnG Alkylphosphonate utilization protein 5.2 SPO0472 phnK Phosphonate C-P lyase system protein 10.9 SPO0505 rplO Ribosomal protein L15 3.2 5.7...”
Saci_1134 hypothetical protein from Sulfolobus acidocaldarius DSM 639
32% identity, 37% coverage
- Impact of nutrient excess on physiology and metabolism of <i>Sulfolobus acidocaldarius</i>
Sedlmayr, Frontiers in microbiology 2024 - “...protein 2.1 1.2 saci_2122 Hypothetical protein 2.0 1.0 Ilipid metabolism saci_1054 Acyl-CoA synthetase 3.0 1.6 saci_1134 3-Hydroxyacyl-CoA dehydrogenase 2.6 1.2 saci_2148 Acyl-CoA synthetase 2.1 1.1 saci_2208 3-Hydroxyacyl-CoA dehydrogenase 2.8 1.4 saci_2209 Acetyl-CoA acetyltransferase 4.0 2.1 saci_2211 Acyl-CoA synthetase 2.4 2.1 saci_2219 Sterol carrier protein 2.0 1.5...”
A4U99_15055 enoyl-CoA hydratase-related protein from Flavonifractor plautii
30% identity, 78% coverage
AKT31_ALTAL / Q9P4U9 Enoyl-CoA hydratase AKT3-1; AF-toxin biosynthesis protein 3-1; EC 4.2.1.17 from Alternaria alternata (Alternaria rot fungus) (Torula alternata) (see 4 papers)
35% identity, 80% coverage
- function: Enoyl-CoA hydratase; part of the gene clusters that mediate the biosynthesis of the host-selective toxins (HSTs) AK-toxins responsible for Japanese pear black spot disease by the Japanese pear pathotype (PubMed:10432635, PubMed:10975654, PubMed:20348386). AK- toxins are esters of 9,10-epoxy 8-hydroxy 9-methyldecatrienoic acid (EDA) (PubMed:22846083). On cellular level, AK-toxins affect plasma membrane of susceptible cells and cause a sudden increase in loss of K(+) after a few minutes of toxin treatment (PubMed:22846083). The acyl-CoA ligase AKT1, the hydrolase AKT2 and enoyl-CoA hydratase AKT3 are all involved in the biosynthesis of the AK-, AF- and ACT-toxin common 9,10-epoxy-8-hydroxy-9-methyl-decatrienoic acid (EDA) structural moiety (PubMed:10432635, PubMed:10975654, PubMed:22846083). Part of the EDA biosynthesis occurs in the peroxisome since these 3 enzymes are localized in peroxisomes (PubMed:20348386). The exact roles of the 3 enzymes, as well as of additional AK-toxin clusters enzymes, including AKT4, AKT6 and AKTS1, have still to be elucidated (PubMed:10432635, PubMed:10975654, PubMed:22846083). The Cytochrome P450 monooxygenase AKT7 on the other side functions to limit production of EDA and AK- toxin, probably via the catalysis of a side reaction of EDA or its precursor (PubMed:24611558).
catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
catalytic activity: a 4-saturated-(3S)-3-hydroxyacyl-CoA = a (3E)-enoyl-CoA + H2O (RHEA:20724)
disruption phenotype: Abolishes the production of AF-toxins and their precuror 9,10-epoxy-8-hydroxy-9-methyl-decatrienoic acid; and impairs the pathogenicity.
PNUC_RS08130 enoyl-CoA hydratase from Polynucleobacter asymbioticus QLW-P1DMWA-1
30% identity, 80% coverage
Psest_2437 Enoyl-CoA hydratase [valine degradation] (EC 4.2.1.17) from Pseudomonas stutzeri RCH2
30% identity, 80% coverage
- mutant phenotype: Specifically important for utilizing L-Isoleucine. Automated validation from mutant phenotype: the predicted function (METHYLACYLYLCOA-HYDROXY-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
Tneu_0541 3-hydroxyacyl-CoA dehydrogenase NAD-binding from Thermoproteus neutrophilus V24Sta
Tneu_0541 3-hydroxyacyl-CoA dehydrogenase/enoyl-CoA hydratase family protein from Pyrobaculum neutrophilum V24Sta
32% identity, 37% coverage
- Identification of missing genes and enzymes for autotrophic carbon fixation in crenarchaeota
Ramos-Vera, Journal of bacteriology 2011 - “...Igni_0595); 14, crotonyl-CoA hydratase (Msed_0399, Tneu_0541, Igni _1058); 15, (S)-3-hydroxybutyryl-CoA dehydrogenase (NAD) (Msed_0399, Tneu_0541, Igni _1058);...”
- “...dehydrogenase (N-terminal domain, 40 kDa) (Msed_0399, Tneu_0541, Igni_1058). Autotrophic Sulfolobales contained additional, less similar candidate genes coding...”
- The complete genome sequence of Thermoproteus tenax: a physiologically versatile member of the Crenarchaeota
Siebers, PloS one 2011 - “...Tneu_0420 (82%, 0.0) 4-Hydroxybutyryl-CoA dehydratase TTX_1102 Tneu_0422 (100%, 0.0) Crotonyl-CoA hydratase/( S )-3-Hydroxybutyryl-CoA DH TTX_1028 Tneu_0541 (99%, 0.0) Igni_1058 (99%, 1e-160) Acetoacetyl-CoA -ketothiolase TTX_0886 Tneu_0249 (99%, 1e-166) Igni_1401 (99%, 2e-104) The corresponding e-values derived from blastp analyses of the T. neutrophilus (Tneu_) and I. hospitalis (Igni_)...”
- Regulation of autotrophic CO2 fixation in the archaeon Thermoproteus neutrophilus
Ramos-Vera, Journal of bacteriology 2010 - “...Tneu_1204 Tneu_0418 Tneu_1509 Tneu_1464 Tneu_1463 Tneu_0420 Tneu_0422 Tneu_0541 Enzymea VOL. 192, 2010 REGULATION OF AUTOTROPHY IN THERMOPROTEUS 5335 scription...”
- (S)-3-Hydroxybutyryl-CoA Dehydrogenase From the Autotrophic 3-Hydroxypropionate/4-Hydroxybutyrate Cycle in Nitrosopumilus maritimus
Liu, Frontiers in microbiology 2021 - “...are marked as following: purple triangle, Nmar_1028; red triangle, Msed_1423; red star, Msed_0399; olive star, Tneu_0541 (from Pyrobaculum neutrophilum ); turquoise star, Igni_1058 (from Ignicoccus hospitalis ); , dehydrogenase; without , fusion protein; 80 sequences from TACK group in red, 15 sequences from non-AOA Thaumarchaeota in...”
Swol_0790 Enoyl-CoA hydratase/carnithine racemase from Syntrophomonas wolfei subsp. wolfei str. Goettingen
32% identity, 79% coverage
- Dynamic acylome reveals metabolite driven modifications in Syntrophomonas wolfei
Fu, Frontiers in microbiology 2022 - “...as follows: acyl-CoA transferase (Swol_0309, 1014, 1147, 2128), acyl-CoA dehydrogenase (Swol_0488, 0788, 1841), enoyl-CoA hydratase (Swol_0790, 2031, 2129), 3- hydroxybutyryl-CoA dehydrogenase (Swol_0307, 0791, 1171), and acetyl-CoA acetyltransferase (Swol_0308, 0789). Our improved proteomic depth revealed additional -oxidation paralogs and led us to investigate the presence of protein...”
KPHS_23740 enoyl-CoA hydratase-isomerase from Klebsiella pneumoniae subsp. pneumoniae HS11286
32% identity, 80% coverage
- Use of a combined antibacterial synergy approach and the ANNOgesic tool to identify novel targets within the gene networks of multidrug-resistant Klebsiella pneumoniae
Lee, mSystems 2024 - “...Lysine degradation. Upregulation of KPHS_13090 (lysine decarboxylase 1) and downregulation of KPHS_09840 (glutarate 2-hydroxylase) and KPHS_23740 (enoyl-CoA hydratase-isomerase) were significantly changed after combination treatment exposure. ( H ) Starch and sucrose metabolism. KPHS_04990 (trehalose(maltose)-specific PTS system component IIBC) was upregulated and KPHS_52250 (putative PTS, EIIC) was...”
- “...( G ) KPHS_23680 (enoyl-CoA hydratase), which is involved in phenylalanine metabolism, is linked to KPHS_23740. Downregulation of KPHS_46340 (putrescine aminotransferases) and KPHS_43350 (acetyl-CoA acetyltransferase) results in a connection with the target gene KPHS_28070, which is a novel noncoding sRNA. KPHS_02470 (glucose-6-phosphate isomerase) is a positively...”
FGSG_11295 hypothetical protein from Fusarium graminearum PH-1
31% identity, 83% coverage
H16_A3307 putative enoyl-CoA hydratase from Ralstonia eutropha H16
H16_A3307 enoyl-CoA hydratase from Cupriavidus necator H16
30% identity, 80% coverage
- Microaerobic insights into production of polyhydroxyalkanoates containing 3-hydroxyhexanoate via native reverse β-oxidation from glucose in Ralstonia eutropha H16
Huong, Microbial cell factories 2024 - “...dehydrogenases PaaH1 (H16_A0282) and Had (H16_A0602), as well as the ( S )-specific crotonase Crt2 (H16_A3307) in R. eutropha were reported to be broad substrate specific [ 20 ], thus possess capability to function in conversion of 3-oxoacyl-CoA to trans -2-enoyl-CoA via ( S )-3-hydroxyacyl-CoA of...”
- “...), phaB3 ( h16_A2171 ), had ( h16_A0602 ), paaH1 ( h16_A0282 ), crt2 ( h16_A3307 ), bktB ( h16_A1445 ), phaJ4a ( h16_A1070 ), h16_A3330 , and fadB ( h16_A0461 ) (Additional file 1 : Table S2). The deletion vectors for bktB and h16_A3330 were...”
- Biosynthesis of Polyhydroxyalkanoate Terpolymer from Methanol via the Reverse β-Oxidation Pathway in the Presence of Lanthanide
Orita, Microorganisms 2022 - “...at the corresponding site to obtain pCM80Km_emdbktB. A tandem of had Re (H16_A0602)- crt2 Re (H16_A3307) genes was prepared by fusion PCR. The had Re and crt2 Re fragments were individually amplified from R. eutropha genomic DNA using A0602-F/A0602-R-Fus and A3307-F-Fus/A3307-R as the primer sets, respectively....”
- Insights into the Degradation of Medium-Chain-Length Dicarboxylic Acids in Cupriavidus necator H16 Reveal β-Oxidation Differences between Dicarboxylic Acids and Fatty Acids
Strittmatter, Applied and environmental microbiology 2022 (secret) - Two NADH-dependent (S)-3-hydroxyacyl-CoA dehydrogenases from polyhydroxyalkanoate-producing Ralstonia eutropha
Segawa, Journal of bioscience and bioengineering 2019 (PubMed)- “...partially purified and identified as H16_A3307. 0 false false Polyhydroxyalkanoates Poly(3-hydroxybutyrate) Ralstonia eutropha NADH-3-hydroxyacyl-CoA...”
- “...partially purified and identified as H16_A3307. Key words Polyhydroxyalkanoates Poly(3-hydroxybutyrate) Ralstonia eutropha NADH-3-hydroxyacyl-CoA dehydrogenase...”
- Modification of acetoacetyl-CoA reduction step in Ralstonia eutropha for biosynthesis of poly(3-hydroxybutyrate-co-3-hydroxyhexanoate) from structurally unrelated compounds
Zhang, Microbial cell factories 2019 - “...PaaH1 (H16_A0282) and Had (H16_A0602), as well as ( S )-specific enoyl-CoA hydratase (crotonase) Crt2 (H16_A3307) in the cell extract of R. eutropha [ 39 ]. Analysis of the enzymatic characteristics indicated that these enzymes showed rather broad specificities with high activities toward the C 4...”
- Whole-genome microarray and gene deletion studies reveal regulation of the polyhydroxyalkanoate production cycle by the stringent response in Ralstonia eutropha H16
Brigham, Applied and environmental microbiology 2012 - “...reductase), fabZ (encoding 3-hydroxymyristoyl-[ACP] dehydratase), and H16_A3307 (encoding a putative enoyl-CoA hydratase). Our microarray data have confirmed...”
- Genome-wide transcriptome analyses of the 'Knallgas' bacterium Ralstonia eutropha H16 with regard to polyhydroxyalkanoate metabolism
Peplinski, Microbiology (Reading, England) 2010 (PubMed)- “...In strain H16, phaP3, accC2, fabZ, fabG and H16_A3307 exhibited a decreased transcription level in the stationary growth phase compared with the transition...”
- “...Compared with PHB"4, we found that phaA, phaB1, paaH1, H16_A3307, phaP3, accC2 and fabG were induced in the wildtype, and phaP1, phaP4, phaZ2 and phaZ6...”
BP1026B_I0261 enoyl-CoA hydratase from Burkholderia pseudomallei 1026b
30% identity, 80% coverage
- Transient In Vivo Resistance Mechanisms of Burkholderia pseudomallei to Ceftazidime and Molecular Markers for Monitoring Treatment Response
Cummings, PLoS neglected tropical diseases 2017 - “...are unknown hypotheticals (N = 14). Annotated genes of interest as potential biomarkers are paaF (BP1026B_I0261), tagD-4 (BP1026B_II0586), and filR (BP1026B_I0034). Together, the molecular markers of in vivo infection and the molecular markers discriminant of ceftazidime treatment provide the foundation for diagnostics about response to treatment....”
- “...markers ceftazidime treatment in vivo . Locus Tag Gene Name Product Name COG Mean FPKM BP1026B_I0261 paaF enoyl-CoA hydratase Lipid metabolism 7281 BP1026B_I1657 hypothetical protein Function unknown 3468 BP1026B_II0389 hypothetical protein Function unknown 2509 BP1026B_II2046 carboxylesterase family protein Lipid metabolism 1729 BP1026B_II1993 Function unknown 1715 BP1026B_II1217...”
PA3591 probable enoyl-CoA hydratase/isomerase from Pseudomonas aeruginosa PAO1
Q9HY35 Probable enoyl-CoA hydratase/isomerase from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
31% identity, 81% coverage
- Static Growth Promotes PrrF and 2-Alkyl-4(1H)-Quinolone Regulation of Type VI Secretion Protein Expression in Pseudomonas aeruginosa
Brewer, Journal of bacteriology 2020 (secret) - Dissection of the cis-2-decenoic acid signaling network in Pseudomonas aeruginosa using microarray technique
Rahmani-Badi, Frontiers in microbiology 2015 - “...PA1535, PA1576, PA1628-PA1629, PA1631, PA1827, PA1869, PA2550, PA2552, PA2815, PA2841, PA2887-PA2891, PA2893, PA3286, PA3426, PA3589, PA3591, PA3593, PA3924,PA4089, PA4330, PA4912, PA4979-PA4980, PA4995, PA5020, PA5524 Protein and Amino acid metabolism thrS, folC, glnA, gmk, tgt, dadA, pauA3A5, gltX, gcvT1T2, glyQ, gdhA, valS, purD, trmD, speA, metGK, hutH,...”
- “...(Figure 5A ). While, microarray analysis showed that 8 genes encoding putative enoyl-CoA hydratase/isomerase ( PA3591, PA1021, PA1629, PA2890, PA3426, PA4330, PA1240 , and PA2841 ) were highly up-regulated in our study, known PPI data showed that only PA4980 directly interacts with a sensor kinase and...”
- Cloning and genetic characterization of dca genes required for beta-oxidation of straight-chain dicarboxylic acids in Acinetobacter sp. strain ADP1
Parke, Applied and environmental microbiology 2001 - “...indicated parenthetically: dcaA homolog (PA3593), dcaE homolog (PA3591), dcaH homolog (PA3590), dcaF homolog (PA3589), and the possible porin gene (PA3588). In...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...O07533, O34893, P94549, O32178, P0ABU0, P76082, P21177, P77399, P31551, P52045, P77467, P76082, Q9I498, Q9I002, Q9I393, Q9HY35, Q9HZJ2, Q9I300, Q9HZV7, Q9I298, Q9I5I5, Q9HW71, Q9HUI5, Q9I2S4, Q9I5I4, Q9I4V3, Q9I2Y9, Q9I076, Q9HYH9, Q9L6L5, Q8ZNA7, Q82RX5, Q7CQ56). Sequence pairs were collected that had alignment lengths of at least 83 amino...”
WP_071879306 enoyl-CoA hydratase/isomerase family protein from Enterococcus silesiacus
30% identity, 81% coverage
TTX_1028 3-hydroxyacyl-CoA dehydrogenase/enoyl-CoA hydratase family protein from Thermoproteus tenax Kra 1
32% identity, 36% coverage
SGRA_p0039 enoyl-CoA hydratase-related protein from Saprospira grandis str. Lewin
30% identity, 83% coverage
Q86YB7 Enoyl-CoA hydratase domain-containing protein 2, mitochondrial from Homo sapiens
30% identity, 93% coverage
BAB1_2185 Enoyl-CoA hydratase/isomerase from Brucella melitensis biovar Abortus 2308
32% identity, 82% coverage
- Intracellular adaptation of Brucella abortus
Lamontagne, Journal of proteome research 2009 - “...synthesis BA14 lectin like 73 BAB1_0483 Lipid metabolism FabG 74 BAB1_0486 Lipid metabolism FabF 75 BAB1_2185 Lipid metabolism Ech 76 BAB1_2174 Lipid metabolism FabA 77 BAB2_0975 Lipid metabolism FabC 78 BAB2_1008 Cell division MepA 79 BAB1_1530 Cell division UvrB 80 BAB2_0475 Cell division XseA 81 BAB1_0640...”
D5RAC1 Enoyl-CoA hydratase/isomerase family protein from Fusobacterium nucleatum subsp. nucleatum (strain ATCC 23726 / VPI 4351)
FN1020 3-hydroxybutyryl-CoA dehydratase from Fusobacterium nucleatum subsp. nucleatum ATCC 25586
30% identity, 82% coverage
- Quantitative Proteomic Analysis of Outer Membrane Vesicles from Fusobacterium nucleatum Cultivated in the Mimic Cancer Environment
Zhang, Microbiology spectrum 2023 - “...D5RDA3 and D5RD18), formate C-acetyltransferase (D5RDZ7), acetyl-CoA C-acetyltransferase (D5RE94), 3-hydroxyacyl-CoA dehydrogenase (D5RAC0), and enoyl-CoA hydratase (D5RAC1), were downregulated, among which pyruvate synthase (D5RD18) was significantly downregulated by 0.42-fold. The downregulation of pyruvate synthase can inhibit the oxidative decarboxylation of pyruvate to form acetyl-CoA, reducing the amount...”
- The Pathogenicity of Fusobacterium nucleatum Modulated by Dietary Fibers-A Possible Missing Link between the Dietary Composition and the Risk of Colorectal Cancer
Nawab, Microorganisms 2023 - “...FN1170 (Por)) to Acetyl-CoA (FN0495 (Thl/atoB)), Acetoacetyl-CoA (Hbd (FN1019), (R) and (S)-3-Hydroxybutanoyl-CoA (CroR (FN0816), cro (FN1020)), and Crotonyl-CoA (Bcd (FN1424, FN0783, and FN1535) to yield Butyryl-CoA; from Butyryl-CoA through the butyryl-CoA, the acetate CoA transferase (But: atoD/atoA) route (FN1856 and FN1857) finally yielded butyrate, and almost...”
- “...31 ] Lysine FN1868 (AAL93967) 3-keto-5-aminohexanoate cleavage enzyme (kce) [ 45 ] Pyruvate FN1421 (AAL95614) FN1020 (AAL95216) Pyruvate-flavodoxin/ferredoxin oxidoreductase (Por/nifJ) Enoyl-Coenzyme A (CoA) hydratase (Crt) This study F. prausnitzii L2-6 Glutarate FP2_05280 (CBK98162) Glutaconyl-CoA decarboxylase beta subunit (GcdB) This study Pyruvate FP2_19990 (CBK99399) FP2_20590 (CBK99451) Pyruvate:ferredoxin...”
- Genome sequence and analysis of the oral bacterium Fusobacterium nucleatum strain ATCC 25586
Kapatral, Journal of bacteriology 2002 - “...deamidation of glutamate by NAD() glutamate dehydrogenase (FN1020), followed by the reduction of 2-oxoglutarate by 2-hydroxyglutarate dehydrogenase. An ORF...”
Afu2g10920 enoyl-CoA hydratase/isomerase family protein from Aspergillus fumigatus Af293
30% identity, 85% coverage
- Evolutionary Analysis of Sequence Divergence and Diversity of Duplicate Genes in Aspergillus fumigatus
Yang, Evolutionary bioinformatics online 2012 - “...1.49 [1.57, 0.69] Afu5g12770 2.20 [2.17, 1.20] Afu1g00540 1.54 [1.78, 1.00] Afu8g04060 1.74 [1.85, 0.86] Afu2g10920 1.57 [2.32, 2.09] Afu3g03410 1.95 [2.24, 1.52] Afu8g04070 1.66 [1.85, 0.92] Afu1g00480 2.98 [2.01, 0.19] Afu3g07830 1.67 [2.27, 1.88] Afu1g06710 2.55 [2.08, 0.69] Afu2g10840 1.81 [1.29, 0.01] Afu6g11810 2.47 [1.61,...”
- Genes differentially expressed in conidia and hyphae of Aspergillus fumigatus upon exposure to human neutrophils
Sugui, PloS one 2008 - “...family AN6752.2 Afu7g06090 fatty-acyl coA oxidase (Pox1) AN6752.2 Afu4g10950 3-ketoacyl-coA thiolase peroxisomal A precursor AN5646.2 Afu2g10920 enoyl-CoA hydratase/isomerase family protein AN5916.2/ echA Acetate metabolism: Afu1g13510 C6 transcription factor (FacB/Cat8) AN0689.2/ facB Afu4g11080 acetyl-coenzyme A synthetase FacA AN5626.2/ facA Afu6g14100 mitochondrial carnitine:acyl carnitine carrier AN5356.2/ acuH Afu1g12340...”
BPHYT_RS17335 2,3-dehydroadipyl-CoA hydratase / enoyl-CoA hydratase (EC 4.2.1.17) from Burkholderia phytofirmans PsJN
30% identity, 80% coverage
- mutant phenotype: Specifically important for utilization of phenylacetate and phenylalanine. 51% identical to the characterized enzyme (paaF = Q845K2) from Pseudomonas sp. Y2, which is part of the aerobic phenylacetyl-CoA pathway. Also, 83% identical to enoyl-CoA hydratase Crt2 = H16_A3307 from Ralstonia eutropha (PMID:30243533).
BB0763 enoyl CoA dehydratase/isomerase from Bordetella bronchiseptica RB50
30% identity, 81% coverage
AFT31_ALTAL / Q96VB3 Enoyl-CoA hydratase AFT3-1; AF-toxin biosynthesis protein 3-1; EC 4.2.1.17 from Alternaria alternata (Alternaria rot fungus) (Torula alternata) (see 3 papers)
34% identity, 80% coverage
- function: Enoyl-CoA hydratase; part of the gene clusters that mediate the biosynthesis of the host-selective toxins (HSTs) AF-toxins responsible for Alternaria black spot of strawberry disease by the strawberry pathotype (PubMed:12019223). AF-toxin I and III are valine derivatives of 2,3-dyhydroxy-isovaleric acid and 2-hydroxy-isovaleric acid respectively, while AF II is an isoleucine derivative of 2- hydroxy-valeric acid (PubMed:15066029, PubMed:22846083, Ref.2). These derivatives are bound to a 9,10-epoxy-8-hydroxy-9-methyl-decatrienoic acid (EDA) moiety (PubMed:15066029, PubMed:22846083, Ref.2). On cellular level, AF-toxins affect plasma membrane of susceptible cells and cause a sudden increase in loss of K(+) after a few minutes of toxin treatment (PubMed:22846083). The aldo-keto reductase AFTS1 catalyzes the conversion of 2-keto-isovaleric acid (2-KIV) to 2- hydroxy-isovaleric acid (2-HIV) by reduction of its ketone to an alcohol (PubMed:15066029). The acyl-CoA ligase AFT1, the hydrolase AFT2 and the enoyl-CoA hydratases AFT3 and AFT6, but also the polyketide synthase AFT9, the acyl-CoA dehydrogenase AFT10, the cytochrome P450 monooxygenase AFT11 and the oxidoreductase AFT12 are all involved in the biosynthesis of the AK-, AF- and ACT-toxin common EDA structural moiety (PubMed:12019223, PubMed:18986255, Ref.2). The exact function of each enzyme, and of additional enzymes identified within the AF-toxin clusters have still to be determined (PubMed:12019223, PubMed:18986255, Ref.2).
catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
catalytic activity: a 4-saturated-(3S)-3-hydroxyacyl-CoA = a (3E)-enoyl-CoA + H2O (RHEA:20724)
disruption phenotype: Abolishes the production of AF-toxins and their precuror 9,10-epoxy-8-hydroxy-9-methyl-decatrienoic acid (EDA); and impairs the pathogenicity (PubMed:12019223). Does not affect growth rate of cultures, sporulation, and spore germination (PubMed:12019223).
BCAL0409 putative phenylacetic acid degradation enoyl-CoA hydratase PaaF from Burkholderia cenocepacia J2315
31% identity, 80% coverage
BB4614 putative enoyl-CoA hydratase from Bordetella bronchiseptica RB50
30% identity, 80% coverage
Msed_0399 / A4YDS4 crotonyl-CoA hydratase/(S)-3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.35; EC 4.2.1.150) from Metallosphaera sedula (strain ATCC 51363 / DSM 5348 / JCM 9185 / NBRC 15509 / TH2) (see 3 papers)
A4YDS4 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157); 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35); short-chain-enoyl-CoA hydratase (EC 4.2.1.150) from Metallosphaera sedula (see 2 papers)
Msed_0399 3-hydroxyacyl-CoA dehydrogenase, NAD-binding from Metallosphaera sedula DSM 5348
31% identity, 37% coverage
- Convergent Evolution of a Promiscuous 3-Hydroxypropionyl-CoA Dehydratase/Crotonyl-CoA Hydratase in Crenarchaeota and Thaumarchaeota
Liu, mSphere 2021 - “...well as crotonyl-CoA hydratase, and (ii) a bifunctional fusion protein crotonyl-CoA hydratase/( S )-3-hydroxybutyryl-CoA dehydrogenase Msed_0399; they are both present in, and were purified from, autotrophically grown cells ( 15 , 16 ). In M. sedula cell extracts, correspondingly, the crotonyl-CoA hydratase activity is much higher...”
- “...universally found in autotrophic Sulfolobales ) and that the bifunctional crotonyl-CoA hydratase/( S )-3-hydroxybutyryl-CoA dehydrogenase Msed_0399 is apparently not the main crotonyl-CoA hydratase in this archaeon, although this protein is present in autotrophically grown cells ( 17 ). Indeed, the genome contains four more dehydratase candidates...”
- (S)-3-Hydroxybutyryl-CoA Dehydrogenase From the Autotrophic 3-Hydroxypropionate/4-Hydroxybutyrate Cycle in Nitrosopumilus maritimus
Liu, Frontiers in microbiology 2021 - “...low ( S )-3-hydroxybutyryl-CoA dehydrogenase activity. The activity of bifunctional crotonyl-CoA hydratase/( S )-3-hydroxybutyryl-CoA dehydrogenase Msed_0399 is comparable to that of Nmar_1028, while its K m value is 6 times higher than that of Nmar_1028 ( Tables 1 , 3 ). Msed_1423 is the main (...”
- “...). The catalytic properties of Nmar_1028 are rather comparable with those of Msed_1423 than of Msed_0399. Indeed, the k cat / K m values of Nmar_1028 and Msed_1423 were 5- and 20-fold higher than the corresponding value of Msed_0399 in the ( S )-3-hydroxybutyryl-CoA dehydrogenase reaction...”
- Enzymes Catalyzing Crotonyl-CoA Conversion to Acetoacetyl-CoA During the Autotrophic CO2 Fixation in Metallosphaera sedula
Liu, Frontiers in microbiology 2020 - “...model autotrophic member of Sulfolobales, Metallosphaera sedula , possesses in addition to the bifunctional protein (Msed_0399) several separate genes coding for crotonyl-CoA hydratase and ( S )-3-hydroxybutyryl-CoA dehydrogenase. Their genes were previously shown to be transcribed under autotrophic and mixotrophic conditions. The dehydrogenase Msed_1423 (and not...”
- “...Msed_1321 0.39 ND /2.2 f,h No Up 12.5 Hawkins et al., 2014 Crotonyl-CoA hydratase (14) Msed_0399 Msed_0384 Msed_0385 Msed_0336 Msed_0566 Msed_0399 15.0 13.8 f ,g /38 g /20 f,h ND ND ND ND No Down Down No No 19.7 Ramos-Vera et al., 2011 ; Hawkins et...”
- Reaction kinetic analysis of the 3-hydroxypropionate/4-hydroxybutyrate CO2 fixation cycle in extremely thermoacidophilic archaea
Loder, Metabolic engineering 2016 - “...H 2 O R ( Hawkins et al., 2014 ) Crotonyl-CoA hydratase/(S)-3-Hydroxybutyryl-CoA dehydrogenase (NADH) CCH/HBCD Msed_0399 a) Crotonyl-CoA + H 2 O ( S )-3-Hydroxybutyryl-CoA b) ( S )-3-Hydroxybutyryl-CoA + NAD Acetoacetyl-CoA + NADH NP ( Ramos-Vera et al., 2011 ), R ( Hawkins et al.,...”
- Novel Transcriptional Regulons for Autotrophic Cycle Genes in Crenarchaeota
Leyn, Journal of bacteriology 2015 - “...(hpcD-hbd) from the HHC pathway, which is encoded by Msed_0399 in M. sedula (6), does not belong to the reconstructed HhcR regulon in the Sulfolobales spp. (see...”
- “...M. sedula), which is 46% identical to Msed_0399. Interestingly, the Sulfolobales have at least three 4-hydroxybutyryl-CoA synthetase gene candidates. Msed_0406...”
- Conversion of 4-hydroxybutyrate to acetyl coenzyme A and its anapleurosis in the Metallosphaera sedula 3-hydroxypropionate/4-hydroxybutyrate carbon fixation pathway
Hawkins, Applied and environmental microbiology 2014 - “...(Msed_1321), crotonyl-CoA hydratase/(S)-3-hydroxybutyrylCoA dehydrogenase (Msed_0399), and acetoacetyl-CoA -ketothiolase (Msed_0656), were produced...”
- “...Msed_2001 Msed_1426 Msed_0639 Msed_0638, Msed_2055 Msed_1424 Msed_0406 Msed_1321 Msed_0399 Msed_0656 NCE (6, 34) R (35, 36) R (36) NP (37) NP, R (38) NP...”
- Role of 4-hydroxybutyrate-CoA synthetase in the CO2 fixation cycle in thermoacidophilic archaea
Hawkins, The Journal of biological chemistry 2013 - “...Msed_0638 Msed_2055 Msed_1424 Msed_0394 Msed_0406 Msed_1321 Msed_0399 Msed_0656 CO2-H2 Autotrophy in Metallosphaera sedula FIGURE 2. Bioreactor schematic for...”
- Epimerase (Msed_0639) and mutase (Msed_0638 and Msed_2055) convert (S)-methylmalonyl-coenzyme A (CoA) to succinyl-CoA in the Metallosphaera sedula 3-hydroxypropionate/4-hydroxybutyrate cycle
Han, Applied and environmental microbiology 2012 - “...HBCD CCH Msed_1424 Unknown Msed_1321 Msed_0399 16 ACK Msed_0656 Malonyl-CoA/succinyl-CoA reductase Malonate semialdehyde reductase 3-Hydroxypropionyl-CoA...”
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AFUA_8G01210 enoyl-CoA hydratase/isomerase family protein from Aspergillus fumigatus Af293
30% identity, 80% coverage
BCE_4651 enoyl-CoA hydratase/isomerase family protein from Bacillus cereus ATCC 10987
30% identity, 77% coverage
BP3277 putative enoyl-CoA hydratase from Bordetella pertussis Tohama I
30% identity, 80% coverage
- Immuno-proteomics analysis between OMV of vaccine and dominant wild type strains of Bordetella pertussis in Iran
Badamchi, Iranian journal of microbiology 2020 - “...protein (spot 27; BP1616), Inorganic pyrophosphatase (spot 30; BP2533), a Putative enoyl-CoA hydratase (spot 25; BP3277). Five of protein spots were common among OMV of the vaccine strain tested and OMV of Bp IP91 including (BP2759), (BP2377), (BP2818), (BP3266) (BP0965), (BP0205) and BP0558. ( Figs. 4A...”
- “...subunit 64.8 6.1 596 cytoplasm 34 lpdA 5.872 Dihydrolipoyl dehydrogenase 62.3 6.1 596 cytoplasm 35 BP3277 45.45 Putative enoyl-CoA hydratase 30.1 6.2 275 cytoplasm 36 mmsB 19.19 3-hydroxyisobutyrate dehydrogenase 29.6 5.7 297 cytoplasm 37 BP2434 2.828 Periplasmic serine endoprotease DegPlike 52.1 7.6 495 periplasm, Outer membrane...”
BA2551 enoyl-CoA hydratase/isomerase family protein from Bacillus anthracis str. Ames
33% identity, 80% coverage
BAS4420 enoyl-CoA hydratase/isomerase family protein from Bacillus anthracis str. Sterne
30% identity, 77% coverage
BMEI1945 enoyl-CoA hydratase from Brucella melitensis 16M
32% identity, 82% coverage
RHA1_RS22405 enoyl-CoA hydratase from Rhodococcus jostii RHA1
32% identity, 66% coverage
- Degradation of Bile Acids by Soil and Water Bacteria
Feller, Microorganisms 2021 - “...** (FadE31) Nov2c356 ACAD C211_RS11250 CTCNB1_RS06545 (ORF22) RHA1_RS22395 ** (FadE32) Nov2c357 Hydratase C211_RS11230 CTCNB1_RS06525 (ScdN) RHA1_RS22405 Nov2c353 2-hydroxy-hexa-2,4-dienoate degradation 2-Hydroxypenta-2,4-dienoate hydratase C211_RS10995 CTCNB1_RS06905 (TesE) RHA1_RS28310 (HsaE3) Nov2c346 Acetaldehyde dehydrogenase C211_RS10985 CTCNB1_RS06895 (TesG) RHA1_RS28315 (HsaG3) Nov2c344 4-Hydroxy-2-ketovalerate aldolase C211_RS10990 CTCNB1_RS06900 (TesF) RHA1_RS28320 (HsaF3) Nov2c345 Transformation of 12OH...”
- Catabolism of the Last Two Steroid Rings in Mycobacterium tuberculosis and Other Bacteria
Crowe, mBio 2017 - “...bacteria that catabolize cholate or other bile acids, the HIP catabolic gene cluster contains echA13 (RHA1_RS22405 in R.jostii RHA1) ( 1 , 9 , 10 ). A homolog of EchA20, EchA13 is proposed to remove the hydroxyl of 7-OH HIP, generated from cholate degradation ( 10...”
BAS3322 enoyl-CoA hydratase/isomerase family protein from Bacillus anthracis str. Sterne
30% identity, 80% coverage
- The Exosporium Layer of Bacterial Spores: a Connection to the Environment and the Infected Host
Stewart, Microbiology and molecular biology reviews : MMBR 2015 - “...by the products encoded within a four-gene operon (bas3322 to bas3319) not linked to bclA (86-88). Furthermore, the bas5304 determinant was shown to be...”
- Identification of an African Bacillus anthracis lineage that lacks expression of the spore surface-associated anthrose-containing oligosaccharide
Tamborrini, Journal of bacteriology 2011 - “...as enoyl coenzyme A (enoyl-CoA) hydratase (BAS3322), glycosyltransferase (BAS3321), aminotransferase (BAS3320), and acyltransferase (BAS3319). Anthrose has been...”
- “...of the B. anthracis anthrose operon genes BAS3319 to BAS3322. Primers employed for PCR amplification are listed in Table 1 and were designed using the genome...”
- Characterization of the enzymes encoded by the anthrose biosynthetic operon of Bacillus anthracis
Dong, Journal of bacteriology 2010 - “...The four genes of the anthrose operon are antA (BAS3322), antB (BAS3321), antC (BAS3320), and antD (BAS3319). The operon is flanked by genes that encode a...”
- “...mutants for genes BAS3318, BAS3319, BAS3320, BAS3321, and BAS3322 were made as described previously (5). Escherichia coli strains INVF, GM1684, and BL21(DE3)...”
- Anthrose biosynthetic operon of Bacillus anthracis
Dong, Journal of bacteriology 2008 - “...the O methylation of the hydroxyl group at C-2. BAS3322 encodes an enoyl-CoA hydratase, an enzyme predicted to be involved in the biosynthesis of the side chain...”
- “...by a 8-residue uridine-rich tract (13). For simplicity, genes BAS3322 through BAS3317 will hereafter be referred to as genes 1 through 6, as shown in Fig. 2....”
SACE_3132 enoyl-CoA hydratase from Saccharopolyspora erythraea NRRL 2338
30% identity, 81% coverage
FP2_20590 enoyl-CoA hydratase-related protein from Faecalibacterium prausnitzii L2-6
30% identity, 79% coverage
PA14_38470 putative enoyl-CoA hydratase from Pseudomonas aeruginosa UCBPP-PA14
Q9I298 3-methylglutaconyl-CoA hydratase from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
PA2013 gamma-carboxygeranoyl-CoA hydratase, GnyH from Pseudomonas aeruginosa PAO1
27% identity, 82% coverage
- Gene Expression Profiling of Pseudomonas aeruginosa Upon Exposure to Colistin and Tobramycin
Cianciulli, Frontiers in microbiology 2021 - “...PA14_38440 Citronelloyl-CoA dehydrogenase. GnyD 30.42 2.32 gnyB PA14_38460 Acyl-CoA carboxyltransferase subunit beta 27.71 X gnyH PA14_38470 Gamma-carboxygeranoyl-CoA hydratase 33.85 3.73 gnyA PA14_38480 Alpha subunit of geranoyl-CoA carboxylase. GnyA 26.11 X ilvA2 PA14_47100 Threonine dehydratase 24.7 7.68 Peptidoglycan biosynthesis ddl PA14_57320 D -alanine D -alanine ligase 151.66...”
- Systemic Responses of Multidrug-Resistant Pseudomonas aeruginosa and Acinetobacter baumannii Following Exposure to the Antimicrobial Peptide Cathelicidin-BF Imply Multiple Intracellular Targets
Liu, Frontiers in cellular and infection microbiology 2017 - “...transport pathway. Ubiquinone and other terpenoid-quinone biosynthesis pathways were enriched in levofloxacin-treated P. aeruginosa . Q9I298, a putative 3-methylglutaconyl-ConA hydratase, and Q9HTV3, a 3-octaprenyl-4-hydroxybenzoate carboxy-lyase, were downregulated in this pathway. Notably, Q9I5V3 was downregulated in levofloxacin-treated P. aeruginosa , and both Q9I298 and Q9HTV3 were downregulated...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...P0ABU0, P76082, P21177, P77399, P31551, P52045, P77467, P76082, Q9I498, Q9I002, Q9I393, Q9HY35, Q9HZJ2, Q9I300, Q9HZV7, Q9I298, Q9I5I5, Q9HW71, Q9HUI5, Q9I2S4, Q9I5I4, Q9I4V3, Q9I2Y9, Q9I076, Q9HYH9, Q9L6L5, Q8ZNA7, Q82RX5, Q7CQ56). Sequence pairs were collected that had alignment lengths of at least 83 amino acids, distances of 200...”
- A novel reverse transcription recombinase polymerase amplification assay for rapid detection of GI.1 genotype of rabbit hemorrhagic disease virus
Zhang, Frontiers in veterinary science 2023 - “...strain), rabbit astrovirus (Z721 strain), Salmonella (sm1378 strain), Klebsiella pneumoniae (kp1806 strain) and Pseudomonas Aeruginosa (pa2013 strain). In addition, the liver from SPF rabbits was used as negative control. For sensitivity analysis, infected rabbit liver tissue was grinded with PBS buffer, diluted from 10 1 to...”
- Identification of genes involved in enhanced membrane vesicle formation in Pseudomonas aeruginosa biofilms: surface sensing facilitates vesiculation
Kanno, Frontiers in microbiology 2023 - “...1.1 (0.44) 1.0 PAMK75E5 PA1375 (1492714) pdxB Erythronate-4-phosphate dehydrogenase 0.11 (0.021) 2.5 (0.96) 1.0 PAMK73D10 PA2013 (2203019) liuC Putative 3-methylglutaconyl-CoA hydratase 0.31 (0.047) 0.67 (0.31) 1.3 PAMK11H7 PA2014 (2204985) liuB Methylcrotonyl-CoA carboxylase, beta-subunit 0.20 (0.0049) 0.71 (0.29) 1.3 PAMK54D11 PA2014 (2204172) liuB Methylcrotonyl-CoA carboxylase, beta-subunit 0.25...”
- Differential transcription profiling of the phage LUZ19 infection process in different growth media
Brandão, RNA biology 2021 (secret) - The development of a new parameter for tracking post-transcriptional regulation allows the detailed map of the Pseudomonas aeruginosa Crc regulon
Corona, Scientific reports 2018 - “...PA2008 Fumarylacetoacetase 3,24 2,58 4,09 Catabolism hmgA PA2009 Homogentisate 1-2dioxygenase 3,36 1,68 1,43 Catabolism liuC PA2013 Putative 3-methylglutaconyl-CoA hydratase 2,27 1,76 2,74 Catabolism liuB PA2014 Methylcrotonyl-CoA carboxylase 2,37 1,32 1,39 Catabolism liuA PA2015 Putative isovaleryl-CoA dehydrogenase 2,16 2,06 3,69 Catabolism pauA4 PA2040 Glutamylpolyamine synthetase 1 0,16...”
- Small Colony Variants and Single Nucleotide Variations in Pf1 Region of PB1 Phage-Resistant Pseudomonas aeruginosa
Lim, Frontiers in microbiology 2016 - “...PA2001 atoB Acetyl-CoA acetyltransferase -1.9 1.E-02 PA2012 gnyA Alpha subunit of geranoyl-CoA carboxylase -2.6 4.E-02 PA2013 gnyH Gamma-carboxygeranoyl-CoA hydratase -2.6 2.E-02 PA2014 gnyB Beta subunit of geranoyl-CoA carboxylase -2.3 2.E-02 PA2247 bkdA1 2-oxoisovalerate dehydrogenase (alpha subunit) -2.7 1.E-02 PA2248 bkdA2 2-oxoisovalerate dehydrogenase (beta subunit) -3.4 4.E-03...”
- The Pseudomonas aeruginosa Isohexenyl Glutaconyl Coenzyme A Hydratase (AtuE) Is Upregulated in Citronellate-Grown Cells and Belongs to the Crotonase Family
Poudel, Applied and environmental microbiology 2015 - “...California, Berkeley PA1535 PA1982 PA1984 PA2011 PA2012 PA2013 PA2014 PA2015 PA2886 PA2887 PA2888 PA2889 PA2890 PA2891 PA2892 PA4330 Gene Structure-Function of...”
- Pseudomonas aeruginosa twitching motility-mediated chemotaxis towards phospholipids and fatty acids: specificity and metabolic requirements
Miller, Journal of bacteriology 2008 - “...PA0797 PA0887 PA1137 PA1288 PA1736 PA1737 PA2011 PA2012 PA2013 PA2014 PA2015 PA2142 PA2552 PA2553 PA2554 PA2555 PA2557 PA2634 PA2764 PA2862 PA2863 PA2887 PA2888...”
- “...PA2889) and enoyl-CoA hydratases (e.g., PA0744, PA0745, and PA2013) in the PAO1 genome. Once LCFAs are converted to acetyl-CoA via -oxidation, they would then...”
- Toxicogenomic response of Pseudomonas aeruginosa to ortho-phenylphenol
Nde, BMC genomics 2008 - “...several genes involved in the synthesis of acetylCoA were present in this group. In particular, PA2013 and PA0745 (probable enoylCoA hydratases) involved in the synthesis of acetylCoA from Lysine and butanoate respectively and PA3417 (probable pyruvate dehydrogenase E1 component) which catalyzes the transformation of pyruvate to...”
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An02g02820 uncharacterized protein from Aspergillus niger
31% identity, 85% coverage
- Metabolic pathway reconstruction of eugenol to vanillin bioconversion in Aspergillus niger
Srivastava, Bioinformation 2010 - “...An01g09260 (gi|145230075|ref|XP_001389346.1 predicted as CalB), hypothetical protein An14g05630 (gi|145249694|ref|XP_001401186.1 predicted as Fcs) and hypothetical protein An02g02820 (gi|145231906|ref|XP_001399422.1 predicted as Ech) predicted to be the pathways enzymes of target organism i.e., A. niger with conserved protein domains & motifs (Table 1 in supplementary material ). Sequence similarity...”
GK2873 dihydroxynapthoic acid synthetase from Geobacillus kaustophilus HTA426
33% identity, 82% coverage
Q1D5U2 3-hydroxybutyryl-CoA dehydratase from Myxococcus xanthus (strain DK1622)
31% identity, 82% coverage
- Proteome Analyses of Soil Bacteria Grown in the Presence of Potato Suberin, a Recalcitrant Biopolymer
Sidibé, Microbes and environments 2016 - “...0.10 I Q1D340 malonyl CoA-acyl carrier protein transacylase 0.11 I Q1D5U1 3-hydroxyacyl-CoA dehydrogenase 0.18 I Q1D5U2 enoyl CoA dehydratase 0.13 I Q1D4E4 acyl-CoA dehydrogenase 0.07 I Q1D0T9 acetyl CoA carboxylase 0.03 I Q1D555 acetyl-coenzyme A carboxylase carboxyl transferase 0.06 I Q1D234 acetyl-CoA acetyltransferase 0.05 I Q1CZK4...”
- “...Q1D3D6, Q1D4E4 b , Q1D5Y1 b , Q1CZW5, A0A0H4WWQ8 enoyl-CoA hydratase I4WR77 b , I4WPL0 Q1D5U2 b 3-hydroxyacyl-CoA dehydrogenase I4WIC4, I4VRU7 a Q1D5U1 b , Q1D233 b acetyl-CoA acetyltransferase I4WBZ6, I4WIC3 Q1D5VO, Q1D234 b , BKT b , Q1D003 a Regulation of the fatty acid utilization...”
H281DRAFT_05725 2,3-dehydroadipyl-CoA hydratase / enoyl-CoA hydratase (EC 4.2.1.17) from Paraburkholderia bryophila 376MFSha3.1
29% identity, 80% coverage
- mutant phenotype: Specifically important for phenylacetate utilization. 51% identical to the characterized enzyme (paaF = Q845K2) from Pseudomonas sp. Y2, which is part of the aerobic phenylacetyl-CoA pathway. Also, 84% identical to enoyl-CoA hydratase Crt2 = H16_A3307 from Ralstonia eutropha (PMID:30243533).
H16_A0100 Enoyl-CoA hydratase/carnithine racemase from Ralstonia eutropha H16
29% identity, 77% coverage
Q9I393 Probable enoyl-CoA hydratase/isomerase from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
PA1629 probable enoyl-CoA hydratase/isomerase from Pseudomonas aeruginosa PAO1
31% identity, 79% coverage
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...P40802, O07533, O34893, P94549, O32178, P0ABU0, P76082, P21177, P77399, P31551, P52045, P77467, P76082, Q9I498, Q9I002, Q9I393, Q9HY35, Q9HZJ2, Q9I300, Q9HZV7, Q9I298, Q9I5I5, Q9HW71, Q9HUI5, Q9I2S4, Q9I5I4, Q9I4V3, Q9I2Y9, Q9I076, Q9HYH9, Q9L6L5, Q8ZNA7, Q82RX5, Q7CQ56). Sequence pairs were collected that had alignment lengths of at least 83...”
- Dissection of the cis-2-decenoic acid signaling network in Pseudomonas aeruginosa using microarray technique
Rahmani-Badi, Frontiers in microbiology 2015 - “...). While, microarray analysis showed that 8 genes encoding putative enoyl-CoA hydratase/isomerase ( PA3591, PA1021, PA1629, PA2890, PA3426, PA4330, PA1240 , and PA2841 ) were highly up-regulated in our study, known PPI data showed that only PA4980 directly interacts with a sensor kinase and its response...”
- Characterization of molecular mechanisms controlling fabAB transcription in Pseudomonas aeruginosa
Schweizer, PloS one 2012 - “...encoding the 54 factor rpoN ; PA0286 ( desA ), encoding aerobic fatty acid desaturase; PA1629 , encoding a probable enoyl-CoA hydratase/isomerase; PA4760 , encoding a putative heat shock protein; PA4233 , encoding a probable major facilitator superfamily (MFS) transporter; and several other genes e.g. PA0358...”
- “...M 54 transcription factor # 16 PA4760 ::Tn M Heat shock protein DnaJ # 25 PA1629 ::Tn M Probable enoyl-CoA hydratase/isomerase # 30 PA0358 ::Tn M Hypothetical protein # 39 PA3649 ::Tn M Hypothetical protein (63% similar to E. coli yaeL ) # 44 PA4476 ::Tn...”
- In vivo evidence of Pseudomonas aeruginosa nutrient acquisition and pathogenesis in the lungs of cystic fibrosis patients
Son, Infection and immunity 2007 - “...PC PC PC Fatty acid degradation PA0507 PA1284 PA1628 PA1629 PA2889 PA2893 PA3013 PA3014 PA3300 PA3454 PA4199 PA4785 PA4814 PA4994 PA4995 fadE fadE fadB fadB...”
- Cloning and genetic characterization of dca genes required for beta-oxidation of straight-chain dicarboxylic acids in Acinetobacter sp. strain ADP1
Parke, Applied and environmental microbiology 2001 - “...for the PAO1 genes are indicated in parentheses: dcaE (PA1629), dcaH (PA1628), dcaR (PA1630), and dcaA (PA1631). In Acinetobacter, dcaR is linked to dcaF and...”
D3RXI4 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35); 3-hydroxybutyryl-CoA dehydratase (EC 4.2.1.55) from Ferroglobus placidus (see paper)
31% identity, 36% coverage
YP_555851 enoyl-CoA hydratase from Burkholderia xenovorans LB400
31% identity, 79% coverage
- Biodegradation of lignin monomers and bioconversion of ferulic acid to vanillic acid by Paraburkholderia aromaticivorans AR20-38 isolated from Alpine forest soil
Margesin, Applied microbiology and biotechnology 2021 - “...2.1e-154; 1.3e-165; 4.1e-93 Enoyl-CoA Hydratase/isomerase COG, Non-Redundant Protein Database, SwissProt YP_001413905, YP_002798614, YP_554216, YP_554155, YP_556021, YP_555851, YP_004680815, YP_005026757, YP_559584, WP_005793322.1, WP_028231531.1, WP_035521646.1, WP_011492940.1, WP_012426569.1, WP_012427501.1, WP_012404161.1, WP_030102796.1, WP_028194277.1, WP_069266866.1, WP_064271658.1, WP_012431551.1, WP_012431843.1, WP_035551717.1, WP_012432712.1, WP_035997457.1, WP_011489469.1, WP_011489931.1, WP_012434439.1, SDH36466.1, SDB90530.1, SAL69706.1, SAL32406.1, G4V4T7, O34893 Chromosome 1,...”
FADB_BACSU / P94549 Probable enoyl-CoA hydratase; EC 4.2.1.17 from Bacillus subtilis (strain 168) (see paper)
BSU28540 enoyl-CoA hydratase from Bacillus subtilis subsp. subtilis str. 168
32% identity, 80% coverage
- function: Involved in the degradation of long-chain fatty acids
catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
catalytic activity: a 4-saturated-(3S)-3-hydroxyacyl-CoA = a (3E)-enoyl-CoA + H2O (RHEA:20724) - Proteomics analyses of Bacillus subtilis after treatment with plumbagin, a plant-derived naphthoquinone
Reddy, Omics : a journal of integrative biology 2015 - “...OS P49787 Biotin carboxylase 1 OS P94549 Probable enoyl-CoA hydratase OS P94584 3-hydroxyacyl-[acyl-carrier-protein] dehydratase FabZ OS O07600...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...Q9HWK1, Q8ZQF0, Q8ZNE8, Q8ZR85, Q8ZL15, P40811, Q9L6T2, Q93IM7), Crotonase family (P23966, P40805, P40802, O07533, O34893, P94549, O32178, P0ABU0, P76082, P21177, P77399, P31551, P52045, P77467, P76082, Q9I498, Q9I002, Q9I393, Q9HY35, Q9HZJ2, Q9I300, Q9HZV7, Q9I298, Q9I5I5, Q9HW71, Q9HUI5, Q9I2S4, Q9I5I4, Q9I4V3, Q9I2Y9, Q9I076, Q9HYH9, Q9L6L5, Q8ZNA7, Q82RX5, Q7CQ56)....”
- Membrane composition and organization of Bacillus subtilis 168 and its genome-reduced derivative miniBacillus PG10
van, Microbial biotechnology 2022 - “...3.4 BSU37170 acdA Fatty acid degradation 2.8 8.3 BSU32830 fadA Fatty acid degradation 7.9 14.0 BSU28540 fadB Fatty acid degradation 2.6 3.0 BSU32820 fadE Fatty acid degradation 8.9 18.4 BSU37180 fadF Fatty acid degradation 2.8 4.0 BSU32840 fadN Fatty acid degradation 6.3 5.7 BSU28520 etfA Fatty...”
dcaE / AAL09093.1 DcaE from Acinetobacter baylyi (see 11 papers)
29% identity, 81% coverage
A1S_1111 p-hydroxycinnamoyl CoA hydratase/lyase from Acinetobacter baumannii ATCC 17978
30% identity, 80% coverage
- Transcriptome profiling in imipenem-selected Acinetobacter baumannii
Chang, BMC genomics 2014 - “...Protein tyrosine phosphatase CoA synthase/hydratase/lyase A1S_1109 -0.77 -3.66 Feruloyl-CoA synthase A1S_1110 -0.48 -3.48 Hydroxybenzaldehyde dehydrogenase A1S_1111 -0.41 -4.66 P-hydroxycinnamoyl CoA hydratase/lyase A1S_1112 -0.53 -3.19 Putative 3-hydroxyphenylpropionic transporter MhpT Lipase A1S_1121 4.63 2.24 Lipase/esterase A1S_1122 3.36 0.67 Putative short-chain dehydrogenase A1S_1123 2.77 0.59 Putative flavin-binding monooxygenase Bacterial...”
UW3_RS0120745 2-(1,2-epoxy-1,2-dihydrophenyl)acetyl-CoA isomerase PaaG from Pseudomonas donghuensis
32% identity, 79% coverage
- The Gene paaZ of the Phenylacetic Acid (PAA) Catabolic Pathway Branching Point and ech outside the PAA Catabolon Gene Cluster Are Synergistically Involved in the Biosynthesis of the Iron Scavenger 7-Hydroxytropolone in Pseudomonas donghuensis HYS
Wang, International journal of molecular sciences 2023 - “...), ech , and NodN from P. donghuensis HYS are UW3_RS0120700, UW3_RS0120705, UW3_RS0120710, UW3_RS0120715, UW3_RS0120720, UW3_RS0120745, UW3_RS0120680, UW3_RS0113785, and UW3_RS0112810, respectively. 5. Conclusions In summary, this study is the first to report that the paaABCDE and paaG genes in cluster 2 are involved in the biosynthesis...”
H16_A1885 Enoyl-CoA hydratase/carnithine racemase from Ralstonia eutropha H16
32% identity, 82% coverage
MAP1197 EchA12_2 from Mycobacterium avium subsp. paratuberculosis str. k10
30% identity, 85% coverage
Gbem_0684 methylmalonyl-CoA decarboxylase from Geobacter bemidjiensis Bem
33% identity, 83% coverage
MSMEG_0335 enoyl-CoA hydratase/isomerase from Mycobacterium smegmatis str. MC2 155
31% identity, 81% coverage
ROI_08630 enoyl-CoA hydratase-related protein from Roseburia intestinalis M50/1
31% identity, 78% coverage
HI0968 naphthoate synthase (menB) from Haemophilus influenzae Rd KW20
32% identity, 82% coverage
Q5SLK3 2-(1,2-epoxy-1,2-dihydrophenyl)acetyl-CoA isomerase (EC 5.3.3.18) from Thermus thermophilus (see paper)
30% identity, 80% coverage
MAB_0606c Probable enoyl-CoA hydratase EchA from Mycobacterium abscessus ATCC 19977
31% identity, 82% coverage
- Virulence-Associated Secretion in Mycobacterium abscessus
Bar-Oz, Frontiers in immunology 2022 - “...( 96 ). We found a probable enoyl coA hydratase gene in Mabs genome ( MAB_0606c ) with 44% similarity to Rv0222. One should note, though, that a 44% similarity is quite low, and take this homology with caution. No other information regarding this protein in...”
- “...82% / 89% EchA1 Rv0222 Probable enoyl-CoA hydratase SHP1, TRAF6 Cytokine response Attenuated in vivo MAB_0606c 30% / 44% CpnT/TNT Rv3903c ? Hydrolyses NAD+ NAD+ Necrosis Not attenuated in-vivo Found in prophages MPT53/DsbE Rv2878c Predicted SecA1/2 Disulfide oxidoreductase Tak1 Triggers Cytokine response Hypervirulent in-vivo MAB_3243 63%...”
6slbAAA / H9ZNW0 6slbAAA (see paper)
30% identity, 80% coverage
- Ligand: (~{e})-6-[2-[3-[[(2~{r})-4-[[[(2~{r},3~{s},4~{r},5~{r})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethylsulfanyl]-6-oxidanylidene-hex-3-enoic acid (6slbAAA)
BCG_1533 putative enoyl-CoA hydratase echA12 from Mycobacterium bovis BCG str. Pasteur 1173P2
30% identity, 85% coverage
- Utilisation of the Prestwick Chemical Library to identify drugs that inhibit the growth of mycobacteria
Kanvatirth, PloS one 2019 - “...Drug Name (BCG hits) Mutated Genes Rv Number Positions Amino acid substitutions Probable function Florfenicol BCG_1533 (EchA12) Rv1472 Gga/Aga G239R Possible enoyl-CoA hydratase echA12 [ Mycobacterium bovis BCG str. Pasteur 1173P2] Florfenicol BCG_3158 (PPE50) Rv3135 gGc/gAc G251D PPE family protein Florfenicol BCG_3508 (rpsI) Rv3442c Ccc/Gcc P17A...”
- “...were raised against florfenicol in BCG, and whole genome sequencing revealed a point mutation in BCG_1533 ( echA12 ) gene which encodes for a putative enoyl CoA hydratase ( Table 6 ). EchA12 has been shown to be membrane localized within the mycobacterial cell membrane [...”
PAAG_06309 enoyl-CoA hydratase from Paracoccidioides lutzii Pb01
30% identity, 85% coverage
- The Response of Paracoccidioides lutzii to the Interaction with Human Neutrophils
Silva, Journal of fungi (Basel, Switzerland) 2023 - “...related to fatty acids oxidation, such as 3 hydroxybutyryl CoA dehydrogenase (PAAG_06329), enoyl CoA hydratase (PAAG_06309) and 3 ketoacyl CoA thiolase (PAAG_02664), were also increased after neutrophil internalization, suggesting a potential utilization of fatty acids as fuel within neutrophils. The interaction with neutrophils also increased the...”
- “...0.68 ** PAAG_08859 peroxisomal multifunctional enzyme 1.43 * PAAG_06329 3 hydroxybutyryl CoA dehydrogenase # 1.12 PAAG_06309 enoyl CoA hydratase 1.27 1.32 PAAG_02664 3 ketoacyl CoA thiolase # 1.62 PAAG_01310 2-oxoisovalerate dehydrogenase subunit alpha # 1.65 PAAG_05984 glutaryl CoA dehydrogenase # 1.38 PAAG_03330 dihydrolipoyl dehydrogenase # 1.26...”
- Prediction of Conserved Peptides of Paracoccidioides for Interferon-γ Release Assay: The First Step in the Development of a Lab-Based Approach for Immunological Assessment during Antifungal Therapy
Rosa, Journal of fungi (Basel, Switzerland) 2020 - “...dehydrogenase PADG_06805 0.0 100% 98% Acyl CoA dehydrogenase PADG_07604 0.0 100% 97% Acyl CoA hydratase PAAG_06309 0.0 97% 100% Actin F protein subunit uptake protein PADG_07756 0.0 100% 100% Alcohol dehydrogenase PADG_01174 0.0 100% 97% Alpha-1,2 mannosyltransferase PAAG_02462 0.0 100% 98% Alpha-1,2 mannosyltransferase KTR1 PAAG_07238 0.0...”
- Propionate metabolism in a human pathogenic fungus: proteomic and biochemical analyses
Santos, IMA fungus 2020 - “...act as acyl-CoA dehydrogenases and acyl-CoA hydratase were found as induced in our work (PAAG_06329, PAAG_06309, PAAG_04811). However, further efforts need to be done in order to confirm this hypothesis. CONCLUSIONS Our study brought new insights into biochemical and molecular aspects of propionate metabolism in Paracoccidioides...”
- Differential Metabolism of a Two-Carbon Substrate by Members of the Paracoccidioides Genus
Baeza, Frontiers in microbiology 2017 - “...of fatty acids mainly functions in Pb 01 and Pb EPM83 (PAAG_06329; PAAG_02664; PAAG_05454; PAAG_03116; PAAG_06309; PAAG_06392; PAAG_01557; PADG_01228; PADG_01687; PADG_06805; PADG_07023; PADG_06721; PADG_01209; PADG_02527), producing acetyl-CoA and propionyl-CoA. Acetyl-CoA can be consumed in the glyoxylate cycle for biosynthetic purposes or in the TCA cycle to...”
- “...Pb 01 because of up-regulation of the enzymes acylCoA dehydrogenase (PAAG_05454; PADG_06805) and enoyl-CoA hydratase (PAAG_06309; PADG_01209) in both (Figure 7 , Supplementary Figure 8 ), as well as the up-regulation of 2-oxovalerate dehydrogenase (PAAG_01194) and methylmalonate-semialdehyde dehydrogenase (PAAG_07036) in Pb 01 and 3-hydroxyisobutyrate dehydrogenase (PADG_03466)...”
- Proteomic profile response of Paracoccidioides lutzii to the antifungal argentilactone
Prado, Frontiers in microbiology 2015 - “...* Methyl citrate cycle 2-methylcitrate dehydratase PAAG_04559 20407.15 1.297 Oxidation of fatty acids Enoyl-CoA hydratase PAAG_06309 3244.11 1.716 Acetyl-CoA acetyltransferase PAAG_03447 1578.04 * Peroxisomal 3-ketoacyl-coA thiolase PAAG_03689 1248.76 * Siderophore-iron transport Siderophore peptide synthase PAAG_02354 1582.68 * Protein fate Chaperone DnaK PAAG_01339 14261.80 1.259 Chaperonin PAAG_05142...”
AORI_1505 enoyl-CoA-hydratase DpgD from Amycolatopsis keratiniphila
32% identity, 81% coverage
- Complete genome sequence and comparative genomic analyses of the vancomycin-producing Amycolatopsis orientalis
Xu, BMC genomics 2014 - “...exploration. The vcm cluster was annotated to encode a total of 35 enzymes (AORI_1471 to AORI_1505), including three vancomycin-resistance proteins (VanH, VanA, and VanX [ 7 , 8 ]), three large NRPSs, several post-assembly tailoring enzymes, and a series of biosynthetic proteins for the supply of...”
- “...dpgA Polyketide synthase lcl|AJ223998.1_cdsid_CAA11765.1 92.9 AORI_1503 dpgB Isomerase lcl|Y16952.3_cdsid_CAC48379.1 75 AORI_1504 dpgC Thioesterase lcl|Y16952.3_cdsid_CAC48380.1 83.25 AORI_1505 dpgD Dehydration protein lcl|Y16952.3_cdsid_CAC48381.1 86.49 Note: - represents no orthologous gene was found in bal (Y16952.3) or cep (AL078635.1, AJ223999.1 and AJ223998.1) clusters. Similar to the biosynthesis of balhimycin and...”
H16_B0987 enoyl-CoA hydratase/isomerase family protein from Cupriavidus necator H16
H16_B0987 Enoyl-CoA hydratase/isomerase family protein from Ralstonia eutropha H16
31% identity, 80% coverage
A9762_11320 enoyl-CoA hydratase/isomerase family protein from Pandoraea sp. ISTKB
30% identity, 80% coverage
ACTT3_ALTAL / Q589W8 Enoyl-CoA hydratase ACTT3; ACT-toxin biosynthesis protein 3; EC 4.2.1.17 from Alternaria alternata (Alternaria rot fungus) (Torula alternata) (see 5 papers)
33% identity, 80% coverage
- function: Enoyl-CoA hydratase; part of the gene clusters that mediate the biosynthesis of the host-selective toxins (HSTs) ACT-toxins responsible for brown spot of tangerine disease by the tangerine pathotype which affects tangerines and mandarins (PubMed:18944496, PubMed:18986255). ACT-toxins consist of three moieties, 9,10-epoxy-8- hydroxy-9-methyl-decatrienoic acid (EDA), valine and a polyketide (PubMed:22846083). ACT-toxin I is toxic to both citrus and pear; toxin II the 5''-deoxy derivative of ACT-toxin I, is highly toxic to pear and slightly toxic to citrus (PubMed:22846083). On cellular level, ACT- toxins affect plasma membrane of susceptible cells and cause a sudden increase in loss of K(+) after a few minutes of toxin treatment (PubMed:22846083). The acyl-CoA ligase ACTT1, the hydrolase ACTT2, the enoyl-CoA hydratases ACTT3 and ACTT6, and the acyl-CoA synthetase ACTT5 are all involved in the biosynthesis of the AK-, AF- and ACT-toxin common 9,10-epoxy-8-hydroxy-9-methyl-decatrienoic acid (EDA) structural moiety (PubMed:18944496, PubMed:18986255, PubMed:19271978). The exact role of each enzyme, and of additional enzymes identified within the AF-toxin clusters have still to be determined (PubMed:18944496, PubMed:18986255, PubMed:19271978). On the other hand, ACTTS1 to ACTTS4 are specific to the tangerine pathotype (PubMed:22846083). The function of ACTTS3 is to elongate the polyketide chain portion of ACT-toxin that is unique to this toxin (PubMed:20192828). The enoyl-reductase ACTTS2 might complement the missing enoyl-reductase (ER) domain in ACTTS3 in the synthesis of the polyketide portion of ACT-toxin (PubMed:20055645). The roles of the nonribosomal peptide synthetases-related proteins ACTTS1 and ACTTS4 have also still not been elucidated (PubMed:22846083).
catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
catalytic activity: a 4-saturated-(3S)-3-hydroxyacyl-CoA = a (3E)-enoyl-CoA + H2O (RHEA:20724)
DEFDS_1835 3-hydroxybutyryl-CoA dehydratase from Deferribacter desulfuricans SSM1
31% identity, 81% coverage
H16_B0389 Enoyl-CoA hydratase from Ralstonia eutropha H16
H16_B0389 crotonase/enoyl-CoA hydratase family protein from Cupriavidus necator H16
35% identity, 60% coverage
NGR_c37150 enoyl-CoA hydratase from Sinorhizobium fredii NGR234
NGR_c37150 predicted enoyl-CoA hydratase/isomerase family protein from Rhizobium sp. NGR234
30% identity, 80% coverage
- Screening of metagenomic and genomic libraries reveals three classes of bacterial enzymes that overcome the toxicity of acrylate
Curson, PloS one 2014 - “...are adjacent to each other on the large plasmid pNGR234b, but are unlinked to vutD (NGR_c37150) and vutG (NGR_c03390), which are both located (but separately from each other) on the S. fredii chromosome ( Figure 4 ). The VutD and VutE Enzymes of S. fredii NGR234...”
- “...the valine oxidation pathway in S. fredii itself, we made insertional, genomic mutations in vutD (NGR_c37150) and vutE (NGR_b20860) of S. fredii , using pBIO1879, a Spc R -resistant derivative of the widely used suicide plasmid pK19 mob (see Materials and Methods). One ratified mutant for...”
VF_1669 1,4-dihydroxy-2-naphthoyl-CoA synthase from Aliivibrio fischeri ES114
34% identity, 82% coverage
Q6CF43 YALI0B10406p from Yarrowia lipolytica (strain CLIB 122 / E 150)
30% identity, 70% coverage
H16_B1773 Enoyl-CoA hydratase/carnithine racemase from Ralstonia eutropha H16
29% identity, 81% coverage
VF_1669 dihydroxynaphthoic acid synthetase from Vibrio fischeri ES114
34% identity, 82% coverage
MENB_SALTY / Q7CQ56 1,4-dihydroxy-2-naphthoyl-CoA synthase; DHNA-CoA synthase; EC 4.1.3.36 from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
31% identity, 82% coverage
- function: Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4-dihydroxy-2- naphthoyl-CoA (DHNA-CoA).
catalytic activity: 2-succinylbenzoyl-CoA + H(+) = 1,4-dihydroxy-2-naphthoyl-CoA + H2O (RHEA:26562)
cofactor: hydrogencarbonate
subunit: Homohexamer. - Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...Q9I300, Q9HZV7, Q9I298, Q9I5I5, Q9HW71, Q9HUI5, Q9I2S4, Q9I5I4, Q9I4V3, Q9I2Y9, Q9I076, Q9HYH9, Q9L6L5, Q8ZNA7, Q82RX5, Q7CQ56). Sequence pairs were collected that had alignment lengths of at least 83 amino acids, distances of 200 Pam units or less, and aligned over at least 50% of the length...”
paaF / Q845K2 2,3-dehydroadipyl-CoA hydratase (EC 4.2.1.17) from Pseudomonas sp. Y2 (see paper)
30% identity, 81% coverage
PP_3283 2-(1,2-epoxy-1,2-dihydrophenyl)acetyl-CoA isomerase PaaG from Pseudomonas putida KT2440
PP3283 enoyl-CoA hydratase/isomerase PhaB from Pseudomonas putida KT2440
30% identity, 81% coverage
PADG_01209 uncharacterized protein from Paracoccidioides brasiliensis Pb18
C1G2P3 Enoyl-CoA hydratase from Paracoccidioides brasiliensis (strain Pb18)
30% identity, 82% coverage
- Prediction of Conserved Peptides of Paracoccidioides for Interferon-γ Release Assay: The First Step in the Development of a Lab-Based Approach for Immunological Assessment during Antifungal Therapy
Rosa, Journal of fungi (Basel, Switzerland) 2020 - “...Dihydrolopiol dehydrogenase PAAG_06494 0.0 100% 97% Dolichol-phosphate mannosyltransferase PAAG_01874 0.0 98% 100% Enoyl coenzyme crontonase PADG_01209 0.0 100% 97% Formamidase PAAG_03333 0.0 99% 98% Formamidase PADG_06490 0.0 100% 97% Fumarylacetoacetoato hydrolase PAAG_00869 0.0 98% 100% Glutamyl transferase range PADG_01479 0.0 97% 100% Glutamate dehydrogenase PADG_04516 0.0...”
- Beyond Melanin: Proteomics Reveals Virulence-Related Proteins in Paracoccidioides brasiliensis and Paracoccidioides lutzii Yeast Cells Grown in the Presence of L-Dihydroxyphenylalanine
Almeida-Paes, Journal of fungi (Basel, Switzerland) 2020 - “...the role of L-DOPA in the virulence enhancement of this species. The enzymes enoyl-CoA hydratase (PADG_01209) and acyl-CoA dehydrogenase (PADG_02244) were more abundant in melanized Pb 18, indicating -oxidation of fatty acids in this strain, which also occurs when acetate is available for fungal growth [...”
- Proteomic Analysis of Paracoccidioides brasiliensis During Infection of Alveolar Macrophages Primed or Not by Interferon-Gamma
Chaves, Frontiers in microbiology 2019 - “...F1, gamma subunit; PADG_08349, ATP synthase subunit beta, mitochondrial; PADG_07789, ATP synthase subunit delta, mitochondrial; PADG_01209, enoyl-CoA hydratase; PADG_03194, 3-ketoacyl-CoA thiolase B; PADG_01687, 3-ketoacyl-CoA thiolase; PADG_03449, isopentenyl-diphosphate delta-isomerase; PADG_04343, short chain dehydrogenase/reductase; PADG_02751, acetyl-CoA acetyltransferase. Proteins Regulated in P. brasiliensis During Infection of Non-primed Macrophages A...”
- Differential Metabolism of a Two-Carbon Substrate by Members of the Paracoccidioides Genus
Baeza, Frontiers in microbiology 2017 - “...and Pb EPM83 (PAAG_06329; PAAG_02664; PAAG_05454; PAAG_03116; PAAG_06309; PAAG_06392; PAAG_01557; PADG_01228; PADG_01687; PADG_06805; PADG_07023; PADG_06721; PADG_01209; PADG_02527), producing acetyl-CoA and propionyl-CoA. Acetyl-CoA can be consumed in the glyoxylate cycle for biosynthetic purposes or in the TCA cycle to generate cellular energy as reduced cofactors. Beta-oxidation was...”
- “...01 because of up-regulation of the enzymes acylCoA dehydrogenase (PAAG_05454; PADG_06805) and enoyl-CoA hydratase (PAAG_06309; PADG_01209) in both (Figure 7 , Supplementary Figure 8 ), as well as the up-regulation of 2-oxovalerate dehydrogenase (PAAG_01194) and methylmalonate-semialdehyde dehydrogenase (PAAG_07036) in Pb 01 and 3-hydroxyisobutyrate dehydrogenase (PADG_03466) and...”
- Paracoccidioides brasiliensis presents metabolic reprogramming and secretes a serine proteinase during murine infection
Lacerda, Virulence 2017 - “...ethanol production (TableS4). Proteins involved with fatty acid breakdown, acyl-CoA-binding protein (PADG_01363), enoyl CoA hydratase (PADG_01209), and isocitrate lyase (PADG_01483) in the glyoxylate cycle was induced 1.53-fold in vivo . Enzymes involved with ethanol production are upregulated; alcohol dehydrogenase (PADG_04701) and pyruvate decarboxylase (PADG_00714) increased 13.73...”
- “...MDH malate dehydrogenase (PADG_08054), ICL isocitrate lyase (PADG_01483), MLS malate synthase (PADG_04702), ECH enoyl-CoA hydratase (PADG_01209), ACD acyl-CoA dehydrogenase (PADG_07604) PLA phospholipase (PADG_05993), PGL phosphoglucolactonase (PADG_07771), TRX thioredoxins (PADG_03161 and PADG_05504), TrxR thioredoxin reductase (PADG_01551), SOD superoxide dismutase (PADG_07418 and PADG_01755), CCP cytochrome C peroxidase (PADG_03163)....”
- Macrophage Interaction with Paracoccidioides brasiliensis Yeast Cells Modulates Fungal Metabolism and Generates a Response to Oxidative Stress
Parente-Rocha, PloS one 2015 - “...subunit 120.14 * PADG_08013 Succinate dehydrogenase iron sulfur subunit 665.89 * Beta-oxidation of fatty acid PADG_01209 Enoyl CoA hydratase 11615.45 1.84 Amino acid degradation PADG_03020 Alanine glyoxylate aminotransferase 1597.6 1.93 PADG_01621 Aspartate aminotransferase 768.6 * PADG_08468 4-hydroxyphenylpyruvate dioxygenase 9595.33 2.10 PADG_02214 4-aminobutyrate aminotransferase 1086.24 1.79 PADG_04516...”
- Extracellular vesicles from virulent P. brasiliensis induce TLR4 and dectin-1 expression in innate cells and promote enhanced Th1/Th17 response
Montanari, Virulence 2024 - “...(8S) 8,920571 0,020855 C1GL50 NADPH2:quinone reductase UP(D) 6,671233 5,33E05 C1GBI8 Ribose-5-phosphate isomerase UP(D) 5,144232 3,44E05 C1G2P3 Enoyl-CoA hydratase UP(D) 4,382212 3,44E05 C1G977 Hexokinase UP (12S) 4,342947 0,032162 C1GCI8 2-methylcitrate synthase, mitochondrial UP(D) 3,832717 4,39E05 C1GL12 Glycogen debranching enzyme UP(D) 2,979608 0,000124 Amino acid metabolism C1G3Q0 Methylthioribulose-1-phosphate...”
- Transcriptional profiling of a fungal granuloma reveals a low metabolic activity of Paracoccidioides brasiliensis yeasts and an actively regulated host immune response
Borges, Frontiers in cellular and infection microbiology 2023 - “...DOWN(12) -2,42964 0,026103 Energy metabolism C1G294 succinyl-CoA synthetase alpha subunit [EC:6.2.1.4 6.2.1.5] DOWN(D) -3,29572 0,003605 C1G2P3 enoyl-CoA hydratase [EC:4.2.1.17] DOWN(D) -4,37849 2,82E-05 C1G2W2 Pyruvate kinase (EC 2.7.1.40) DOWN(D) -5,32367 0,00092 C1GM03 Cytochrome b-c1 complex subunit 2 DOWN(D) -4,10832 0,000135 Transport C1FZ88 importin subunit alpha-6/7 DOWN(8) -4,36192...”
- “...production at substrate level, and to provide precursors for porphyrin and heme biosynthesis; enoyl-CoA hydratase (C1G2P3) for beta-oxidation, that provide acetyl-CoA to citric acid cycle, but also intermediates for the metabolism of lipids, cholesterol and ketone body; and, Aspartate aminotransferase (C1G3V5), that catalyses the interconversion of...”
VC1973 naphthoate synthase from Vibrio cholerae O1 biovar eltor str. N16961
34% identity, 82% coverage
AOC05_11215 enoyl-CoA hydratase from Arthrobacter alpinus
28% identity, 80% coverage
- Complete genome of Arthrobacter alpinus strain R3.8, bioremediation potential unraveled with genomic analysis
See-Too, Standards in genomic sciences 2017 - “...and 2-methylnaphthalene degradation, and other genes involved in 1,4-dichlorobenzene degradation, namely enoyl-CoA hydratase [AOC05_00980, AOC05_05365, AOC05_11215, AOC05_11270, AOC05_11290, AOC05_11310, AOC05_13700, AOC05_13710], alkaline phosphatase [AOC05_01425, AOC05_03310, AOC05_12520], nitrilotriacetate monooxygenase [AOC05_10370] and aliphatic amidase amiE [AOC05_16895]. Furthermore, two genes involved in the production of urease were also identified...”
FQU82_01642 enoyl-CoA hydratase from Acinetobacter baumannii
28% identity, 79% coverage
- Transcriptomic analysis reveals the regulatory role of quorum sensing in the Acinetobacter baumannii ATCC 19606 via RNA-seq
Xiong, BMC microbiology 2022 - “...the abaI strain, the upregulated DEGs involved in this pathway included the FQU82_00157, FQU82_00183, FQU82_02324, FQU82_01642( paaF ), FQU82_02187, FQU82_01589( paaK ), FQU82_01581( paaB ), FQU82_01580( paaA ), and FQU82_01583( paaD ), while FQU82_02901 was found to be downregulated. Among the DEGs involved in the arginine...”
- “...10 upregulated DEGs were found to be enriched in the propanoate metabolism: FQU82_00191, FQU82_00562, FQU82_03635, FQU82_01642 ( paaF ), FQU82_00192, FQU82_00189 ( mmsA ), FQU82_00193, FQU82_00159 ( prpB ), FQU82_00160 ( prpC ), and FQU82_00161 ( acnD ). In purine metabolism, 8 DEGs were downregulated, including...”
Gmet_2071 Enoyl-CoA hydratase/isomerase from Geobacter metallireducens GS-15
Q39TX4 Enoyl-CoA hydratase/isomerase from Geobacter metallireducens (strain ATCC 53774 / DSM 7210 / GS-15)
31% identity, 81% coverage
- Genomic and microarray analysis of aromatics degradation in Geobacter metallireducens and comparison to a Geobacter isolate from a contaminated field site
Butler, BMC genomics 2007 - “...Bacterial regulatory proteins, IclR Gmet_2065 28.7 oxr 4Fe-4S binding Gmet_2068 32.6 scsA* Succinyl-CoA synthetase, alpha Gmet_2071 14.1 ech* Enoyl-CoA hydratase/isomerase Gmet_2072 18.4 acd^ 3-hydroxyacyl-CoA dehydrogenase Gmet_2074 50.7 bamN^ Thiolase Gmet_2075 19.1 bamM* Acyl-CoA dehydrogenase Gmet_2077 21.8 bamK N-acetyltransferase Gmet_2080 36.1 bamH^ NAD(P) diaphorase, HoxF Gmet_2081 27.5...”
- “...15-fold were another thiolase (Gmet_2058), two acyl-CoA dehydrogenases (Gmet_2072, Gmet_2075), and two enoyl-CoA hydratases (Gmet_2057, Gmet_2071) (Table 2 ). Thus, though there are several homologs to beta fatty acid oxidation genes in the genome, only one cluster showed increases in expression during benzoate oxidation (Figure 5...”
- Adaptation of Carbon Source Utilization Patterns of Geobacter metallireducens During Sessile Growth
Marozava, Frontiers in microbiology 2020 - “...release ABC transporter, membrane protein 0.1 1.8 1.8 Butanoate metabolism Q39TU7 Phosphotransbutyrylase 1.5 0.4 0.4 Q39TX4 Enoyl-CoA hydratase/isomerase 1.4 0.4 0.2 Q39UY1 Electron transfer flavoprotein, alpha subunit 0.9 4.5 2.6 Q39UY5 Acyl-CoAcarboxylate coenzyme A transferase, beta subunit 0.7 0.5 0.2 Ethanol degradation Q39WT9 Aldehyde:ferredoxin oxidoreductase, tungsten-containing...”
S2475 dihydroxynaphtoic acid synthetase from Shigella flexneri 2a str. 2457T
SF5M90T_2274 1,4-dihydroxy-2-naphthoyl-CoA synthase from Shigella flexneri 5a str. M90T
31% identity, 82% coverage
VPARA_05530 enoyl-CoA hydratase/isomerase family protein from Variovorax paradoxus
32% identity, 81% coverage
- The catabolism of 3,3'-thiodipropionic acid in Variovorax paradoxus strain TBEA6: A proteomic analysis
Heine, PloS one 2019 - “...E . coli expression vector (C-terminal His-tag, Amp r , T7 promoter) expressing ech -30 (VPARA_05530) This study pET32a(+)::e ch-20 E . coli expression vector (C-terminal His-tag, Amp r , T7 promoter) expressing ech -20 (VPARA_05520) This study To determine the growth phase of liquid cell...”
- “...genes (VPARA_21730, VPARA_27740, VPARA_27760), no connections to the TDP catabolism were identified. Enoyl-CoA hydratases (VPARA_05520, VPARA_05530) and a crotonase family protein (VPARA_05510) Ech-20 and Ech-30 were of special interest, as they seemed to be involved in TDP metabolism. Deletion mutants lacking one or both ech genes...”
G8E09_11740 enoyl-CoA hydratase from Acinetobacter pittii
28% identity, 79% coverage
- Phenotypic Variation and Carbapenem Resistance Potential in OXA-499-Producing Acinetobacter pittii
Zhang, Frontiers in microbiology 2020 - “...1.76 0.0000 0.0024 G8E09_14055 Hypothetical protein 1.76 0.0002 0.0089 G8E09_06975 Hypothetical protein 1.76 0.0000 0.0014 G8E09_11740 Enoyl-CoA hydratase 1.76 0.0003 0.0124 G8E09_12805 LysE family transporter 1.75 0.0000 0.0004 G8E09_08700 3-oxoacid CoA-transferase subunit A 1.74 0.0001 0.0044 G8E09_11745 SDR family oxidoreductase 1.74 0.0012 0.0318 G8E09_12925 OprD family...”
MenB / b2262 1,4-dihydroxy-2-naphthoyl-CoA synthase (EC 4.1.3.36) from Escherichia coli K-12 substr. MG1655 (see 3 papers)
menB / P0ABU0 1,4-dihydroxy-2-naphthoyl-CoA synthase (EC 4.1.3.36) from Escherichia coli (strain K12) (see 5 papers)
MENB_ECOLI / P0ABU0 1,4-dihydroxy-2-naphthoyl-CoA synthase; DHNA-CoA synthase; EC 4.1.3.36 from Escherichia coli (strain K12) (see 5 papers)
4i42A / P0ABU0 E.Coli. 1,4-dihydroxy-2-naphthoyl coenzyme a synthase (ecmenb) in complex with 1-hydroxy-2-naphthoyl-coa (see paper)
menB / GB|AAC75322.1 Naphthoate synthase; EC 4.1.3.36 from Escherichia coli (see 4 papers)
menB / AAA23682.1 DHNA synthase from Escherichia coli (see paper)
NP_416765 1,4-dihydroxy-2-naphthoyl-CoA synthase from Escherichia coli str. K-12 substr. MG1655
b2262 naphthoate synthase from Escherichia coli str. K-12 substr. MG1655
31% identity, 82% coverage
- function: Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4-dihydroxy-2- naphthoyl-CoA (DHNA-CoA).
catalytic activity: 2-succinylbenzoyl-CoA + H(+) = 1,4-dihydroxy-2-naphthoyl-CoA + H2O (RHEA:26562)
cofactor: hydrogencarbonate (The hydrogencarbonate anion plays the same catalytic role (proton acceptor) as the side-chain carboxylate group of the essential 'Asp- 185' found in actinobacteria, archaea, bacteroidetes, and deltaproteobacteria.)
subunit: Homohexamer. Dimer of a homotrimer. - Ligand: 1-hydroxy-2-naphthoyl-coa (4i42A)
- Computational Proteome-Wide Study for the Prediction of Escherichia coli Protein Targeting in Host Cell Organelles and Their Implication in Development of Colon Cancer
Khan, ACS omega 2020 - “...enzyme. Induced by l --glycerol-3-phosphate. Increases following exposure to the uncoupler of oxidative phosphorylation 2,4-dinitrophenol P0ABU0 naphthoate synthase 31633.08 5.99 peroxisome 93 converts O-succinylbenzoyl-CoA (OSB-CoA) to 1,4-dihydroxy-2-naphthoic acid (DHNA). Involved in menaquinone biosynthesis P0ADG7 inosine-5-monophosphate dehydrogenase 52022.45 6.02 peroxisome 85 involved in the first step of...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...Q8ZNE8, Q8ZR85, Q8ZL15, P40811, Q9L6T2, Q93IM7), Crotonase family (P23966, P40805, P40802, O07533, O34893, P94549, O32178, P0ABU0, P76082, P21177, P77399, P31551, P52045, P77467, P76082, Q9I498, Q9I002, Q9I393, Q9HY35, Q9HZJ2, Q9I300, Q9HZV7, Q9I298, Q9I5I5, Q9HW71, Q9HUI5, Q9I2S4, Q9I5I4, Q9I4V3, Q9I2Y9, Q9I076, Q9HYH9, Q9L6L5, Q8ZNA7, Q82RX5, Q7CQ56). Sequence pairs...”
- The Escherichia coli proteome: past, present, and future prospects
Han, Microbiology and molecular biology reviews : MMBR 2006 - “...protein G 6.26/55,365.38 MenB P0ABU0 Naphthoate synthase 5.99/31,633.08 MetE P25665 5-Methyltetrahydropteroyl triglutamate-homocysteine methyltransferase...”
- Mechanism of the intramolecular Claisen condensation reaction catalyzed by MenB, a crotonase superfamily member.
Li, Biochemistry 2011 - GeneRIF: The X-ray structure of O-succinylbenzoyl-aminoCoA (OSB-NCoA) bound to MenB from Escherichia coli b2262 provides important insight into the catalytic mechanism by revealing the position of all active site residues.
- Effect of Global Regulators RpoS and Cyclic-AMP/CRP on the Catabolome and Transcriptome of Escherichia coli K12 during Carbon- and Energy-Limited Growth
Franchini, PloS one 2015 - “...** fbaB b , d , e , h b2097 fructose-biphosphate aldolase 4.0 5.6 menB b2262 dihydroxynaphtoic acid synthetase -3.0 * nuoH b2282 NADH dehydrogenase I chain H 3.7 nuoE b2285 NADH dehydrogenase I chain E 4.3 talA a , b , d , e ,...”
- Mechanism of the intramolecular Claisen condensation reaction catalyzed by MenB, a crotonase superfamily member
Li, Biochemistry 2011 - “...order to obtain the corresponding enzyme from Escherichia coli (ecMenB), the E. coli menb gene b2262 (858 bp) was cloned into the pET-15b plasmid (Novagen) and placed in frame with an N-terminal His-tag sequence. Protein expression was performed using BL21 (DE3) E. coli cells essentially as...”
- Mapping of orthologous genes in the context of biological pathways: An application of integer programming
Mao, Proceedings of the National Academy of Sciences of the United States of America 2006 - “...coli K12 includes the following genes: b3930 (menA), b2262 (menB), b2261 (menC), b2264 (menD), b2260 (menE), b2265 (menF), and b3833 (ubiE). The menaquinone...”
- “...has no COG number yet. From EcoCyc we know that b2262 (menB), b2261 (menC), b2264 (menD), b2260 (menE), and b2265 (menF) are in the same operon (TU00298) in E....”
- Recombination-deficient deletions in bacteriophage lambda and their interaction with chi mutations
Henderson, Genetics 1975 - “...REL. Based on the genetic experiments, it is assumed that b2262 leaves REL intact while b1165, b2169 and b1319 delete at least enough of REL to render it...”
- “...a much larger substitution in et al. 1974). The b2262 substituthe central region of the genome (GOTTESMAN tion is not homologous to any part of this DNA....”
CG8778 uncharacterized protein from Drosophila melanogaster
29% identity, 90% coverage
- Icaritin greatly attenuates β-amyloid-induced toxicity in vivo
Li, CNS neuroscience & therapeutics 2024 - “...Figure 6N . The qRTPCR results verified that the expression of Egm, Echs1, CG3902, and CG8778 is consistent with that of the transcriptome data (Figure 6O ). The expression of CG9547 and Yip2 was unchanged under A arc expression, while Icaritin activated the expression of CG9547...”
- An expanded toolkit for Drosophila gene tagging using synthesized homology donor constructs for CRISPR-mediated homologous recombination
Kanca, eLife 2022 - “...We crossed the KozakGAL4 alleles of these genes ( Setx , CG7943 , CG8202 , CG8778 , CG15093 , IntS11 , ZnT49B , and Vps29 ) to yw flies with wild-type alleles of these genes and performed costaining of the GAL4 mRNA, expressed by the KozakGAL4...”
- “...the mRNA expression of the gene product reliably ( Setx , CG7943 , CG8202 , CG8778 , CG15093 , IntS11 , and ZnT49B ), four showed clear overlap between the gene product and GAL4 mRNAs ( Setx , CG8202 , CG10593 , and IntS11, Figure 2figure...”
- Heritable shifts in redox metabolites during mitochondrial quiescence reprogramme progeny metabolism
Hocaoglu, Nature metabolism 2021 - “...Y carbohydrate metabolic process CASD1 CG10672 2.109713 4.03E-12 2.52E-10 Y carbonyl reductase (NADPH) activity CBR3 CG8778 2.097789 4.63E-09 1.84E-07 Y fatty acid beta-oxidation AUH Mtpalpha 1.635704 4.84E-11 2.68E-09 Y fatty acid beta-oxidation HADHA Thiolase 2.848269 1.22E-18 1.50E-16 Y fatty acid beta-oxidation HADHB CG6543 2.257908 3.29E-13 2.29E-11...”
- miR-125-chinmo pathway regulates dietary restriction-dependent enhancement of lifespan in Drosophila
Pandey, eLife 2021 - “...Chinmo exerts its DR effects by regulating the expression of FATP, CG2017, CG9577, CG17554, CG5009, CG8778, CG9527 , and FASN1 . Our findings identify miR-125 as a conserved effector of the DR pathway and open the avenue for this small RNA molecule and its downstream effectors...”
- “...successfully validated the expression of eight fat metabolism genes ( FATP, CG2017, CG9577, CG17554, CG5009, CG8778, CG9527 , and FASN1 ) that were identified through this proteomic analysis ( Figure 7GH ) using RNA extracted from head tissue ( Figure 7G ) or decapitated fly tissue...”
- miR-125-chinmopathway regulates dietary restriction dependent enhancement of lifespan inDrosophila
Pandey, 2020 - A second hybrid-binding domain modulates the activity of Drosophila ribonuclease H1
González, Journal of biochemistry 2020 - “...Yes CG7010 Pyruvate dehydrogenase E1 component subunit alpha, Pdha PDHA2 7.6 Yes Yes No Yes CG8778 CG8778 [enoyl-CoA hydratase], CG8778 AUH b 6.2 Yes Yes No No CG7920 CG7920, isoform A, CG7920 [MATN2] c 6 Yes Yes No Yes CG6439 Isocitrate dehydrogenase 3b, Idh3b IDH3B 6...”
- Investigation of the Developmental Requirements of Drosophila HP1 and Insulator Protein Partner, HIPP1
Glenn, G3 (Bethesda, Md.) 2019 - “...seven with significant homology to HIPP1 ( CG4594 , CG5844 , CG6543 , CG6984 , CG8778 , CG9577 and CG13890 ). Analysis of the exon-intron structure within the crotonase-encoding regions of this subset of genes supports possible ancestry only between Cdyl and Hipp1 or CG13960 ....”
- Evidence that microRNAs are part of the molecular toolkit regulating adult reproductive diapause in the mosquito, Culex pipiens
Meuti, PloS one 2018 - “...CPIJ002342 miR-277 CG6638 CPIJ014783 miR-277 CG4860 CPIJ011633 miR-277 CG1673 CPIJ015408 miR-277 CG6543 CPIJ006455 CPIJ014621 miR-277 CG8778 CPIJ016903 CPIJ006767 CPIJ019824 miR-277 CG3267 CPIJ009999 miR-277 CG10932 CPIJ019232 miR-277 CG12262 CPIJ008217 miR-305 CG30463 CPIJ005695 miR-124 Fatty acid elongation 8.03E-09 yip2 CPIJ002342 miR-277 CG6543 CPIJ006455 CPIJ014621 miR-277 CG16935 CPIJ014619 CPIJ006453...”
- More
Rv1472 enoyl-CoA hydratase from Mycobacterium tuberculosis H37Rv
MT1518 enoyl-CoA hydratase from Mycobacterium tuberculosis CDC1551
29% identity, 85% coverage
- Revolutionizing control strategies against Mycobacterium tuberculosis infection through selected targeting of lipid metabolism
Kim, Cellular and molecular life sciences : CMLS 2023 - “...drrC rv2936-2938 VAN Down echA8 rv1070c H, Capreomycin Up echA12 rv1472 H Up fabD rv2243 H, Thiolactomycin Up R Down fadD2 rv0270 H Up fadD10 rv0099 R Down...”
- Insights into the molecular determinants involved in Mycobacterium tuberculosis persistence and their therapeutic implications
Joshi, Virulence 2021 - “...transcriptional profiles of LivE model with other stress models led to four genes ( Rv2036, Rv1472, Rv0251c , and Rv1956 ) that were common among the nutrient starvation model, gradual hypoxic model, and the enduring hypoxic response model [ 27 ]. Lipid-rich dormancy model Lipids are...”
- System OMICs analysis of Mycobacterium tuberculosis Beijing B0/W148 cluster
Bespyatykh, Scientific reports 2019 - “...(Fig. 5 ). The high representation of cellular lipid metabolic process (GO:0044255) (Rv0632c, Rv0971c, Rv1142c, Rv1472, Rv3039c, Rv3373, Rv3516) in RUS_B0 has been confirmed as compared to H37Rv 18 . Figure 5 DosR regulon expression and protein level. Bars indicate fold changes in gene expression (blue...”
- Utilisation of the Prestwick Chemical Library to identify drugs that inhibit the growth of mycobacteria
Kanvatirth, PloS one 2019 - “...(BCG hits) Mutated Genes Rv Number Positions Amino acid substitutions Probable function Florfenicol BCG_1533 (EchA12) Rv1472 Gga/Aga G239R Possible enoyl-CoA hydratase echA12 [ Mycobacterium bovis BCG str. Pasteur 1173P2] Florfenicol BCG_3158 (PPE50) Rv3135 gGc/gAc G251D PPE family protein Florfenicol BCG_3508 (rpsI) Rv3442c Ccc/Gcc P17A Probable 30S...”
- Resuscitation of Dormant "Non-culturable" Mycobacterium tuberculosis Is Characterized by Immediate Transcriptional Burst
Salina, Frontiers in cellular and infection microbiology 2019 - “...), thioesterase (Rv2928, tesA ), polyketide synthase associated proteins (Rv1528c, papA4 ), and enoyl-CoA hydratase (Rv1472, echA12 ). Figure 5 Dynamics of several functional groups expression during resuscitation. Differential expression is given relative to dormant NC state. The genes encoding redox-sensing transcription factor WhiB6 and transcriptional...”
- Transcriptional Profiling of Mycobacterium tuberculosis Exposed to In Vitro Lysosomal Stress
Lin, Infection and immunity 2016 - “...MT1984 MT2243 MT2599 MT2730 Rv0564c Rv0752c Rv1130 Rv1131 Rv1472 Rv1933c Rv1934c Rv2188c Rv2523c Rv2953 gpsA (gpdA1) fadE9 prpD gltA1 (prpC) echA12 fadE18...”
- Differential roles for the Co(2+) /Ni(2+) transporting ATPases, CtpD and CtpJ, in Mycobacterium tuberculosis virulence
Raimunda, Molecular microbiology 2014 - “...thioredoxin genes trxA ( Rv1470 ), trxB ( Rv1471 ), and an enoyl-coA hydratase ( Rv1472 ), indicating a possible role for CtpD in the metallation of these redox-active proteins. Supporting this, in vitro metal binding assays showed that TrxA binds Co 2+ and Ni 2+...”
- “...( Rv1470 ) and trxB ( Rv1471 ) - and a putative enoyl-CoA hydratase ( Rv1472 ) coding genes downstream ( Fig. 1C ). Unlike TrxB and TrxC, in vitro functional studies have shown that TrxA has an unusual low redox potential and is not functional...”
- Analysis of immune responses against a wide range of Mycobacterium tuberculosis antigens in patients with active pulmonary tuberculosis
Kassa, Clinical and vaccine immunology : CVI 2012 - “...Rv0246 Rv0251c Rv0331 Rv0384c Rv0753c Rv1130 Rv1131 Rv1471 Rv1472 Rv1717 Rv1874 96 Yes Yes (Continued on following page) December 2012 Volume 19 Number 12...”
- More
- Transcriptional Profiling of Mycobacterium tuberculosis Exposed to In Vitro Lysosomal Stress
Lin, Infection and immunity 2016 - “...1.77 2.43 0.4 0.5 MT0590 MT0776 MT1162 MT1163 MT1518 MT1983 MT1984 MT2243 MT2599 MT2730 Rv0564c Rv0752c Rv1130 Rv1131 Rv1472 Rv1933c Rv1934c Rv2188c Rv2523c...”
T1E_5590 2-(1,2-epoxy-1,2-dihydrophenyl)acetyl-CoA isomerase PaaG from Pseudomonas putida DOT-T1E
30% identity, 81% coverage
PP_3284 enoyl-CoA hydratase/isomerase from Pseudomonas putida KT2440
30% identity, 80% coverage
- β-oxidation-polyhydroxyalkanoates synthesis relationship in Pseudomonas putida KT2440 revisited
Liu, Applied microbiology and biotechnology 2023 - “...KT2440 PhaJ homologues for the search, other hydratases, such as PP_3726, PP_1845, PP_2217, PP_2136 and PP_3284, PP_3491, PP_3925 were identified. We have detected PP_1845, PP_2217, PP_2136, PP_3925 and PP_3491 in the proteome of both the WT and sextuple mutant, albeit without a statistically significant change in...”
BAB2_1046 Enoyl-CoA hydratase/isomerase from Brucella melitensis biovar Abortus 2308
32% identity, 82% coverage
bhn_I2225 enoyl-CoA hydratase-related protein from Butyrivibrio hungatei
28% identity, 80% coverage
- The complete genome sequence of the rumen bacterium Butyrivibrio hungatei MB2003
Palevich, Standards in genomic sciences 2017 - “...pyruvate conversion to acetyl-CoA, as well as a butyryl-CoA dehydrogenase/electron transferring flavoprotein bcd - etfAB (bhn_I2225, bhn_I2221 and bhn_I2222) to generate ATP by classic substrate level phosphorylation. In addition, MB2003 possesses genes that encode all six subunits of the Rnf ( rnfA , rnfB , rnfC...”
F4JML5 methylglutaconyl-CoA hydratase (EC 4.2.1.18) from Arabidopsis thaliana (see paper)
28% identity, 81% coverage
- Identification of the Candidate Proteins Related to Oleic Acid Accumulation during Peanut (Arachis hypogaea L.) Seed Development through Comparative Proteome Analysis
Liu, International journal of molecular sciences 2018 - “...1.61 Q9SW21 ACP4 fatty acid biosynthetic process Araip.10019224.1 1.47 O82399 PMDH1 lipid oxidation Araip.10019122.1 1.46 F4JML5 At4g16800 lipid oxidation Araip.10033415.1 1.44 Q9ZP05 PMDH2 regulation of lipid catabolic process Araip.10019397.1 1.27 Q9LD43 CAC3 fatty acid biosynthetic process Araip.10008554.1 1.27 Q9M8L4 GLPK lipid oxidation Araip.10034912.1 1.27 Q9FLH8 At5g51830...”
- “...P33207 At1g24360 fatty acid biosynthetic process Araip.10037915.1 1.67 Q9SQI8 LTA2 lipid biosynthetic process Araip.10019122.1 1.64 F4JML5 At4g16800 fatty acid metabolic process Araip.10020945.1 1.62 Q9SW21 ACP4 fatty acid biosynthetic process Araip.10014644.1 1.62 Q9SS98 At3g01570 lipid storage Araip.10014038.1 1.34 Q9M7Z1 BCE2 fatty acid biosynthetic process Araip.10039882.1 1.33 Q8L9C4...”
BPSL3043 probable enoyl-CoA hydratase PaaG from Burkholderia pseudomallei K96243
29% identity, 80% coverage
EGO55_13545 enoyl-CoA hydratase/isomerase family protein from Caenibius tardaugens NBRC 16725
31% identity, 81% coverage
- Identification of the EdcR Estrogen-Dependent Repressor in Caenibius tardaugens NBRC 16725: Construction of a Cellular Estradiol Biosensor
Ibero, Genes 2021 - “...EGO55_13530 ), lipid-transfer protein ( EGO55_13535 ), enoyl-CoA hydratase/ isomerase ( EGO55_13540 ), 2-ketoacyclohexanecarboxyl-CoA ( EGO55_13545 ), acetyl-CoA acyltransferase ( EGO55_13550 ), hydroxymethylglutaryl-CoA synthase ( EGO55_13555 ) , 3-hydroxyacyl-CoA dehydrogenase ( EGO55_13560 ), acyl-CoA dehydrogenase ( EGO55_13565 ), 4-hydroxyestrone-4,5-dioxygenase ( EGO55_13570 ), vicinal oxygen chelate containing...”
SSO1311 Enoyl CoA hydratase (paaF-3) from Sulfolobus solfataricus P2
29% identity, 86% coverage
Igni_1058 3-hydroxyacyl-CoA dehydrogenase, NAD-binding from Ignicoccus hospitalis KIN4/I
29% identity, 35% coverage
- Functional compartmentalization and metabolic separation in a prokaryotic cell
Flechsler, Proceedings of the National Academy of Sciences of the United States of America 2021 (secret) - (S)-3-Hydroxybutyryl-CoA Dehydrogenase From the Autotrophic 3-Hydroxypropionate/4-Hydroxybutyrate Cycle in Nitrosopumilus maritimus
Liu, Frontiers in microbiology 2021 - “...al., 2011 ; Hawkins et al., 2014 ; Liu et al., 2020 Ignicoccus hospitalis CCH/HBDH Igni_1058 117/152 0.086 1,800 NR NR NR Flechsler et al., 2021 Cupriavidus necator H16 HBDH/enoyl-CoA hydratase b H16_A0461 NR NR NR 149/216 0.048 4,500 Volodina and Steinbchel, 2014 HBDH RePaaH1 NR...”
- “...red triangle, Msed_1423; red star, Msed_0399; olive star, Tneu_0541 (from Pyrobaculum neutrophilum ); turquoise star, Igni_1058 (from Ignicoccus hospitalis ); , dehydrogenase; without , fusion protein; 80 sequences from TACK group in red, 15 sequences from non-AOA Thaumarchaeota in fuchsia, 49 sequences from Euryarchaeota in blue,...”
- Identification of missing genes and enzymes for autotrophic carbon fixation in crenarchaeota
Ramos-Vera, Journal of bacteriology 2011 - “...(N-terminal domain, 40 kDa) (Msed_0399, Tneu_0541, Igni_1058). Autotrophic Sulfolobales contained additional, less similar candidate genes coding for members...”
- The complete genome sequence of Thermoproteus tenax: a physiologically versatile member of the Crenarchaeota
Siebers, PloS one 2011 - “...4-Hydroxybutyryl-CoA dehydratase TTX_1102 Tneu_0422 (100%, 0.0) Crotonyl-CoA hydratase/( S )-3-Hydroxybutyryl-CoA DH TTX_1028 Tneu_0541 (99%, 0.0) Igni_1058 (99%, 1e-160) Acetoacetyl-CoA -ketothiolase TTX_0886 Tneu_0249 (99%, 1e-166) Igni_1401 (99%, 2e-104) The corresponding e-values derived from blastp analyses of the T. neutrophilus (Tneu_) and I. hospitalis (Igni_) candidates involved in...”
menB / P73495 naphthoyl-CoA synthase (EC 4.1.3.36) from Synechocystis sp. (strain PCC 6803 / Kazusa) (see paper)
P73495 1,4-dihydroxy-2-naphthoyl-CoA synthase (EC 4.1.3.36) from Synechocystis sp. (see 2 papers)
4i4zA / P73495 Synechocystis sp. Pcc 6803 1,4-dihydroxy-2-naphthoyl-coenzyme a synthase (menb) in complex with salicylyl-coa (see paper)
sll1127 naphthoate synthase from Synechocystis sp. PCC 6803
32% identity, 82% coverage
DPGD_AMYOR / G4V4T7 Enoyl-CoA-hydratase; EC 4.2.1.17 from Amycolatopsis orientalis (Nocardia orientalis) (see paper)
29% identity, 81% coverage
- function: Involved in the biosynthesis of the nonproteinogenic amino acid monomer (S)-3,5-dihydroxyphenylglycine (Dpg) responsible of the production of vancomycin and teicoplanin antibiotics. Catalyzes the syn-addition of a water molecule across the double bond of a trans-2- enoyl-CoA thioester, resulting in the formation of a beta-hydroxyacyl- CoA thioester. Physiologically, DpgD could act as a dehydratase, facilitating the aromatization of the DPA-S-DgpA or DPA-S-CoA intermediate. It can use the non physiological substrates crotonyl-CoA and beta-methylcrotonyl-CoA.
catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
catalytic activity: a 4-saturated-(3S)-3-hydroxyacyl-CoA = a (3E)-enoyl-CoA + H2O (RHEA:20724) - Biodegradation of lignin monomers and bioconversion of ferulic acid to vanillic acid by Paraburkholderia aromaticivorans AR20-38 isolated from Alpine forest soil.
Margesin, Applied microbiology and biotechnology 2021 - “...WP_028194277.1, WP_069266866.1, WP_064271658.1, WP_012431551.1, WP_012431843.1, WP_035551717.1, WP_012432712.1, WP_035997457.1, WP_011489469.1, WP_011489931.1, WP_012434439.1, SDH36466.1, SDB90530.1, SAL69706.1, SAL32406.1, G4V4T7, O34893 Chromosome 1, 2, and 3 Feruloyl-SCoA to vanillin and acetyl-SCoA (Gasson et al. 1998 ) 5.0e-66; 1.0e-130; 1.6e-201; 1.7e-163; 1.1e-58; 3.5e-123; 2.6e-135; 7.1e-52; 0; 2.4e-130; 1.5e-132; 4.0e-138; 4.2e-157; 1.6e-139;...”
Saci_2208 3-hydroxybutyryl-CoA dehydrogenase from Sulfolobus acidocaldarius DSM 639
32% identity, 38% coverage
- Impact of nutrient excess on physiology and metabolism of <i>Sulfolobus acidocaldarius</i>
Sedlmayr, Frontiers in microbiology 2024 - “...saci_1054 Acyl-CoA synthetase 3.0 1.6 saci_1134 3-Hydroxyacyl-CoA dehydrogenase 2.6 1.2 saci_2148 Acyl-CoA synthetase 2.1 1.1 saci_2208 3-Hydroxyacyl-CoA dehydrogenase 2.8 1.4 saci_2209 Acetyl-CoA acetyltransferase 4.0 2.1 saci_2211 Acyl-CoA synthetase 2.4 2.1 saci_2219 Sterol carrier protein 2.0 1.5 saci_2232 Acetyl-CoA acetyltransferase 2.8 1.8 saci_2233 Acetyl-CoA acetyltransferase 3.0 1.9...”
CBG09979 Protein CBG09979 from Caenorhabditis briggsae
32% identity, 71% coverage
H16_B0382 Enoyl-CoA hydratase from Ralstonia eutropha H16
27% identity, 81% coverage
F1NSS6 Enoyl-CoA hydratase domain containing 2 from Gallus gallus
29% identity, 81% coverage
ECI3_MOUSE / Q78JN3 Enoyl-CoA delta isomerase 3, peroxisomal; Delta(3),delta(2)-enoyl-CoA isomerase; D3,D2-enoyl-CoA isomerase; Dodecenoyl-CoA isomerase; EC 5.3.3.8 from Mus musculus (Mouse) (see paper)
Q78JN3 DELTA3-DELTA2-enoyl-CoA isomerase (EC 5.3.3.8) from Mus musculus (see paper)
NP_081223 enoyl-CoA delta isomerase 3, peroxisomal isoform 1 from Mus musculus
29% identity, 74% coverage
- function: Catalyzes the isomerization of trans-3-nonenoyl-CoA into trans-2-nonenoyl-CoA (PubMed:24344334). May also have activity towards other enoyl-CoA species (Probable).
catalytic activity: a (3Z)-enoyl-CoA = a 4-saturated (2E)-enoyl-CoA (RHEA:45900)
catalytic activity: a (3E)-enoyl-CoA = a 4-saturated (2E)-enoyl-CoA (RHEA:45228)
catalytic activity: (3E)-nonenoyl-CoA = (2E)-nonenoyl-CoA (RHEA:46068) - Comparative Proteomic Analysis of tPVAT during Ang II Infusion.
Liang, Biomedicines 2021 - “...Methylmalonic aciduria type A homolog, mitochondrial Q62009 POSTN Periostin Q80VW7 AKNA Microtubule organization protein AKNA Q78JN3 Eci3 Enoyl-CoA delta isomerase 3, peroxisomal O54940 BNIP2 BCL2/adenovirus E1B 19 kDa protein-interacting protein 2 P68433 H3C1 Histone H3.1 Q6PEE2 CTIF CBP80/20-dependent translation initiation factor Q5SF07 IGF2BP2 Insulin-like growth factor...”
- “...3 0.0169 0.6230 0.3000 Q8BX80, Q69ZF3, Q8K2I4 Peroxisome 8 0.0210 0.6757 0.1333 P08228, Q8JZR0, P34914, Q78JN3, Q61285, O35488, Q91WC3, Q922Z0 Lysosome 8 0.0323 0.7758 0.1231 Q61207, Q9Z1T1, P06797, O89017, P12265, P70699, O70370, Q8K2I4 Thiamine metabolism 2 0.0427 0.7758 0.3333 P09242, Q9R0Y5 Apoptosis 7 0.0443 0.7758 0.1228...”
- Identification and characterization of Eci3, a murine kidney-specific Δ3,Δ2-enoyl-CoA isomerase.
van, FASEB journal : official publication of the Federation of American Societies for Experimental Biology 2014 (PubMed)- GeneRIF: Mouse Eci3 is almost exclusively expressed in kidney.
- GeneRIF: Eci3 specifically evolved in rodents after gene duplication of Eci2 and is localized to the peroxisomes
SYN_RS09150 enoyl-CoA hydratase/isomerase family protein from Syntrophus aciditrophicus SB
32% identity, 72% coverage
Gmet_2057 Enoyl-CoA hydratase/isomerase from Geobacter metallireducens GS-15
33% identity, 81% coverage
- Genomic and microarray analysis of aromatics degradation in Geobacter metallireducens and comparison to a Geobacter isolate from a contaminated field site
Butler, BMC genomics 2007 - “...hypothetical protein Gmet_1802 23.6 Aldehyde ferredoxin oxidoreductase Gmet_1803 15.7 4Fe-4S binding Gmet_2017 31.5 Hypothetical protein Gmet_2057 31.9 ech^ Enoyl-CoA hydratase/isomerase Gmet_2058 15.2 act* Thiolase Gmet_2059 16.4 adh Short-chain dehydrogenase Gmet_2064 13.2 tre^ Bacterial regulatory proteins, IclR Gmet_2065 28.7 oxr 4Fe-4S binding Gmet_2068 32.6 scsA* Succinyl-CoA synthetase,...”
- “...than 15-fold were another thiolase (Gmet_2058), two acyl-CoA dehydrogenases (Gmet_2072, Gmet_2075), and two enoyl-CoA hydratases (Gmet_2057, Gmet_2071) (Table 2 ). Thus, though there are several homologs to beta fatty acid oxidation genes in the genome, only one cluster showed increases in expression during benzoate oxidation (Figure...”
SS1G_00237 hypothetical protein from Sclerotinia sclerotiorum 1980 UF-70
27% identity, 86% coverage
AUO97_RS06660 enoyl-CoA hydratase from Acinetobacter baumannii
27% identity, 82% coverage
- The abaI/abaR Quorum Sensing System Effects on Pathogenicity in Acinetobacter baumannii
Sun, Frontiers in microbiology 2021 - “...abaIR mutant enhances slightly more virulent than abaI . In the abaI mutant, AUO97_RS14195, AUO97_RS16430, AUO97_RS06660, AUO97_RS18630, and AUO97_RS12705 involved in the propanoate metabolism pathway were upregulated. In the abaIR mutant, AUO97_RS14380, AUO97_RS14375, and AUO97_RS14370 involved in the propanoate metabolism pathway were upregulated. Lipids play an...”
H16_A0179 enoyl-CoA hydratase/isomerase family protein from Cupriavidus necator H16
H16_A0179 Enoyl-CoA hydratase/carnithine racemase from Ralstonia eutropha H16
28% identity, 80% coverage
S5LPF1 Enoyl-CoA hydratase/aldolase (Fragment) from Streptomyces sp. V-1
30% identity, 85% coverage
- Biosynthesis of Vanillin by Rational Design of Enoyl-CoA Hydratase/Lyase
Ye, International journal of molecular sciences 2023 - “...of Ech The targeted Ech sequence was selected from Streptomyces sp. strain V-1 (accession number: S5LPF1) in UniProt database. The multiple sequence alignment (MSA) of Ech were performed by retrieving 250 sequences which exhibit more than 60% identity with the targeted sequence from UniProt database. The...”
- “...synthase (Fcs, accession number: S5M744), and the other is the enoyl-CoA hydratase/lyase (Ech, accession number: S5LPF1). Sequence alignments were performed towards Ech, sequences with more than 60 percent homology were retrieved, and the ClusterW [ 32 ] algorithm was used to calculate the multiple sequence alignment....”
- Lignolytic-consortium omics analyses reveal novel genomes and pathways involved in lignin modification and valorization
Moraes, Biotechnology for biofuels 2018 - “...acid identity to Pseudomonas nitroreducens (C3VA24), followed by Amycolatopsis methanolica (59%; A0A076MUC3), Streptomyces sp. (55%; S5LPF1), and D. acidovorans (55%; Q8VNW7). Amino acid sequences from NCBI database and Uniprot with similarity higher than 20% to FerA_B3 and FerB_B11 were considered to construct phylogenetic trees (Additional file...”
FQU82_00193 enoyl-CoA hydratase from Acinetobacter baumannii
26% identity, 82% coverage
- Transcriptomic analysis reveals the regulatory role of quorum sensing in the Acinetobacter baumannii ATCC 19606 via RNA-seq
Xiong, BMC microbiology 2022 - “...the propanoate metabolism: FQU82_00191, FQU82_00562, FQU82_03635, FQU82_01642 ( paaF ), FQU82_00192, FQU82_00189 ( mmsA ), FQU82_00193, FQU82_00159 ( prpB ), FQU82_00160 ( prpC ), and FQU82_00161 ( acnD ). In purine metabolism, 8 DEGs were downregulated, including FQU82_00576 ( ndk ), FQU82_02944 ( purL ), FQU82_02508...”
ST0048 254aa long hypothetical enoyl-CoA hydratase from Sulfolobus tokodaii str. 7
30% identity, 80% coverage
- Macromolecular fingerprinting of sulfolobus species in biofilm: a transcriptomic and proteomic approach combined with spectroscopic analysis
Koerdt, Journal of proteome research 2011 - “...n.s. 0.69 0.075 Carbon monoxide dehydrogenase subunit G SSO2430 n.d. 1.19 0.029 Sulfurtransferase enoyl-CoA hydratase ST0048 2.01 n.s. Carbon monoxide dehydrogenase large chain Saci_2117 n.s. 0.51 0.002 SSO3009 n.d. 0.3 0.046 Oxidoreductase SSO2794 n.d. 0.32 0.021 Thiosulfate reductase electron transport protein (PhsB) ST1839 n.d. 0.67 0.022...”
- “...Anaerobic dimethylsulfoxide reductase ST1789 1.06 n.s. Putative thiosulfate sulfurtransferase ST2564 1.22 n.s. Sulfurtransferase enoyl-CoA hydratase ST0048 2.01 n.s. Carbohydrate transport and metabolism Sugar-related transporter Saci_1782 n.d. 0.59 0.381 SSO2057 n.d. 0.93 0.023 Sugar transporter Saci_2111 n.d. 0.71 0.006 SSO2716 n.d. 0.66 0.012 proline/betaine transporter SSO2938 n.d....”
ScpB / b2919 methylmalonyl-CoA decarboxylase from Escherichia coli K-12 substr. MG1655 (see 5 papers)
scpB / P52045 methylmalonyl-CoA decarboxylase from Escherichia coli (strain K12) (see 4 papers)
SCPB_ECOLI / P52045 Methylmalonyl-CoA decarboxylase; MMCD; Transcarboxylase; EC 4.1.1.- from Escherichia coli (strain K12) (see 2 papers)
1ef9A / P52045 The crystal structure of methylmalonyl coa decarboxylase complexed with 2s-carboxypropyl coa (see paper)
b2919 putative enzyme from Escherichia coli str. K-12 substr. MG1655
32% identity, 77% coverage
- function: Catalyzes the decarboxylation of (R)-methylmalonyl-CoA to propionyl-CoA. Could be part of a pathway that converts succinate to propanoate.
catalytic activity: (R)-methylmalonyl-CoA + H(+) = CO2 + propanoyl-CoA (RHEA:27666)
subunit: Dimer of homotrimers. - Ligand: 2-carboxypropyl-coenzyme a (1ef9A)
- luxS-dependent gene regulation in Escherichia coli K-12 revealed by genomic expression profiling
Wang, Journal of bacteriology 2005 - “...b0076 b2723 b3683 b3028 b2968 b0579 b3220 b0260 b3046 b2919 b3906 b2060 b0790 b1720 b1010 b2797 b2993 b0042 b1001 b2549 b1311 b3141 b1012 b1571 lsrG lsrD lsrA...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...Q93IM7), Crotonase family (P23966, P40805, P40802, O07533, O34893, P94549, O32178, P0ABU0, P76082, P21177, P77399, P31551, P52045, P77467, P76082, Q9I498, Q9I002, Q9I393, Q9HY35, Q9HZJ2, Q9I300, Q9HZV7, Q9I298, Q9I5I5, Q9HW71, Q9HUI5, Q9I2S4, Q9I5I4, Q9I4V3, Q9I2Y9, Q9I076, Q9HYH9, Q9L6L5, Q8ZNA7, Q82RX5, Q7CQ56). Sequence pairs were collected that had alignment...”
AKT32_ALTAL / Q9P4U7 Enoyl-CoA hydratase AKT3-2; AK-toxin biosynthesis protein 3-2; EC 4.2.1.17 from Alternaria alternata (Alternaria rot fungus) (Torula alternata) (see 4 papers)
33% identity, 80% coverage
- function: Enoyl-CoA hydratase; part of the gene clusters that mediate the biosynthesis of the host-selective toxins (HSTs) AK-toxins responsible for Japanese pear black spot disease by the Japanese pear pathotype (PubMed:10975654). AK-toxins are esters of 9,10-epoxy 8- hydroxy 9-methyldecatrienoic acid (EDA) (PubMed:22846083). On cellular level, AK-toxins affect plasma membrane of susceptible cells and cause a sudden increase in loss of K(+) after a few minutes of toxin treatment (PubMed:22846083). The acyl-CoA ligase AKT1, the hydrolase AKT2 and enoyl-CoA hydratase AKT3 are all involved in the biosynthesis of the AK-, AF- and ACT-toxin common 9,10-epoxy-8-hydroxy-9-methyl- decatrienoic acid (EDA) structural moiety (PubMed:10432635, PubMed:10975654, PubMed:22846083). Part of the EDA biosynthesis occurs in the peroxisome since these 3 enzymes are localized in peroxisomes (PubMed:20348386). The exact roles of the 3 enzymes, as well as of additional AK-toxin clusters enzymes, including AKT4, AKT6 and AKTS1, have still to be elucidated (PubMed:10432635, PubMed:10975654, PubMed:22846083). The Cytochrome P450 monooxygenase AKT7 on the other side functions to limit production of EDA and AK-toxin, probably via the catalysis of a side reaction of EDA or its precursor (PubMed:24611558).
catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
catalytic activity: a 4-saturated-(3S)-3-hydroxyacyl-CoA = a (3E)-enoyl-CoA + H2O (RHEA:20724)
BMEII1021 ENOYL-COA HYDRATASE from Brucella melitensis 16M
29% identity, 85% coverage
STM0070 carnitine racemase from Salmonella typhimurium LT2
31% identity, 80% coverage
ECH_THET8 / Q5SKU3 Putative enoyl-CoA hydratase; TtECH; EC 4.2.1.17 from Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8) (see paper)
29% identity, 79% coverage
- catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
subunit: Homohexamer; dimer of trimers.
2uzfA / Q5HH38 Crystal structure of staphylococcus aureus 1,4-dihydroxy-2-naphthoyl coa synthase (menb) in complex with acetoacetyl coa (see paper)
30% identity, 82% coverage
- Ligand: acetoacetyl-coenzyme a (2uzfA)
CA265_RS09125 Methylglutaconyl-CoA hydratase (EC 4.2.1.18) from Pedobacter sp. GW460-11-11-14-LB5
29% identity, 80% coverage
- mutant phenotype: Specifically important for utilizing L-Leucine. Automated validation from mutant phenotype: the predicted function (4.2.1.18) was linked to the condition via a SEED subsystem. This annotation was also checked manually.
lpp0932 hypothetical protein from Legionella pneumophila str. Paris
30% identity, 80% coverage
Q816H9 1,4-dihydroxy-2-naphthoyl-CoA synthase from Bacillus cereus (strain ATCC 14579 / DSM 31 / CCUG 7414 / JCM 2152 / NBRC 15305 / NCIMB 9373 / NCTC 2599 / NRRL B-3711)
BC4853 Naphthoate synthase from Bacillus cereus ATCC 14579
32% identity, 82% coverage
- Redox proteomic study of Bacillus cereus thiol proteome during fermentative anaerobic growth
Hamitouche, BMC genomics 2021 - “...NS NS Cofactors and vitamins metabolism Q81JC6 128/130 PdxS Pyridoxal 5-phosphate synthase lyase NS NS Q816H9 71 MenB 1,4-dihydroxy-2-naphthoyl-CoA synthase NS NS Q818W9 69 BioD ATP-dependent dethiobiotin synthetase NS NS Transcription Q81J18 265 RpoA DNA-directed RNA polymerase subunit alpha NS NS Translation Q814C4 138 Tuf Elongation...”
- Cysteine Proteome Reveals Response to Endogenous Oxidative Stress in Bacillus cereus
Hamitouche, International journal of molecular sciences 2021 - “...catabolism BC2305 Isochorismatase (DhbB) C 197 AVTTSTNLLLK 1.7 C 67 KELGIPVVYTAQPGGQTLEQR Coenzyme transport and metabolism BC4853 1,4-dihydroxy-2-naphthoyl-CoA synthase (MenB) EIWYLC 174 R 1.0 1.6 BC1086 Lipoate--protein ligase AFC 71 SGGDQKVR 1.6 INLAIEEYC 274 VK Post-translational modification, protein turnover, chaperones BC0517 Thioredoxin-dependent thiol peroxidase DMTPGC 47 TTEAC...”
O34893 Putative enoyl-CoA hydratase/isomerase YngF from Bacillus subtilis (strain 168)
BSU18220 enoyl-CoA hydratase from Bacillus subtilis subsp. subtilis str. 168
29% identity, 79% coverage
- Biodegradation of lignin monomers and bioconversion of ferulic acid to vanillic acid by Paraburkholderia aromaticivorans AR20-38 isolated from Alpine forest soil
Margesin, Applied microbiology and biotechnology 2021 - “...WP_069266866.1, WP_064271658.1, WP_012431551.1, WP_012431843.1, WP_035551717.1, WP_012432712.1, WP_035997457.1, WP_011489469.1, WP_011489931.1, WP_012434439.1, SDH36466.1, SDB90530.1, SAL69706.1, SAL32406.1, G4V4T7, O34893 Chromosome 1, 2, and 3 Feruloyl-SCoA to vanillin and acetyl-SCoA (Gasson et al. 1998 ) 5.0e-66; 1.0e-130; 1.6e-201; 1.7e-163; 1.1e-58; 3.5e-123; 2.6e-135; 7.1e-52; 0; 2.4e-130; 1.5e-132; 4.0e-138; 4.2e-157; 1.6e-139; 9.6e-143;...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...Q9HYA3, Q9HWK1, Q8ZQF0, Q8ZNE8, Q8ZR85, Q8ZL15, P40811, Q9L6T2, Q93IM7), Crotonase family (P23966, P40805, P40802, O07533, O34893, P94549, O32178, P0ABU0, P76082, P21177, P77399, P31551, P52045, P77467, P76082, Q9I498, Q9I002, Q9I393, Q9HY35, Q9HZJ2, Q9I300, Q9HZV7, Q9I298, Q9I5I5, Q9HW71, Q9HUI5, Q9I2S4, Q9I5I4, Q9I4V3, Q9I2Y9, Q9I076, Q9HYH9, Q9L6L5, Q8ZNA7, Q82RX5,...”
- The program of gene transcription for a single differentiating cell type during sporulation in Bacillus subtilis
Eichenberger, PLoS biology 2004 - “...yknV (BSU14330), ykuD (BSU14040), ykvI (BSU13710), ykvU (BSU13830), ylbJ (BSU15030), ylbO/gerR (BSU15090), yngE (BSU18210), yngF (BSU18220), yngG (BSU18230), yngH (BSU18240), yngI (BSU18250), yngJ (BSU18260), yoaB (BSU18540), yoaD (BSU18560), yodU (BSU19810), ypqA (BSU22240), ypqP (BSU21670), yqfT (BSU25120), yqhV (BSU24440), yrdK (BSU26680), yydB (BSU40220), yydC (BSU40210), yydD (BSU40200),...”
YaaL / b0036 crotonobetainyl-CoA hydratase (EC 4.2.1.149) from Escherichia coli K-12 substr. MG1655 (see 3 papers)
caiD / P31551 crotonobetainyl-CoA hydratase (EC 4.2.1.149) from Escherichia coli (strain K12) (see 2 papers)
CAID_ECOLI / P31551 Carnitinyl-CoA dehydratase; Crotonobetainyl-CoA hydratase; EC 4.2.1.149 from Escherichia coli (strain K12) (see paper)
P31551 crotonobetainyl-CoA hydratase (EC 4.2.1.149) from Escherichia coli (see 2 papers)
caiD carnitinyl-CoA dehydratase; EC 4.2.1.- from Escherichia coli K12 (see 5 papers)
b0036 crotonobetainyl CoA hydratase from Escherichia coli str. K-12 substr. MG1655
31% identity, 80% coverage
- function: Catalyzes the reversible dehydration of L-carnitinyl-CoA to crotonobetainyl-CoA (PubMed:11551212). Can also hydrate crotonyl-CoA to hydroxybutyryl-CoA (PubMed:11551212).
catalytic activity: (R)-carnitinyl-CoA = crotonobetainyl-CoA + H2O (RHEA:28338)
catalytic activity: 3-hydroxybutanoyl-CoA = (2E)-butenoyl-CoA + H2O (RHEA:45584)
subunit: Homotrimer. - Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...Q9L6T2, Q93IM7), Crotonase family (P23966, P40805, P40802, O07533, O34893, P94549, O32178, P0ABU0, P76082, P21177, P77399, P31551, P52045, P77467, P76082, Q9I498, Q9I002, Q9I393, Q9HY35, Q9HZJ2, Q9I300, Q9HZV7, Q9I298, Q9I5I5, Q9HW71, Q9HUI5, Q9I2S4, Q9I5I4, Q9I4V3, Q9I2Y9, Q9I076, Q9HYH9, Q9L6L5, Q8ZNA7, Q82RX5, Q7CQ56). Sequence pairs were collected that had...”
- Genome annotation errors in pathway databases due to semantic ambiguity in partial EC numbers
Green, Nucleic acids research 2005 - “...in 10 KEGG pathway maps. In eight of these maps, two genes b0036 [Swiss-Prot entry P31551, Carnitinyl-CoA dehydratase (EC 4.2.1.-)] (example URL: ) and b1517 [Swiss-Prot entry P76143, Putative aldolase yneB (EC 4.2.1.-); hypothetical 31.9 kDa protein in hipBuxaB intergenic region] are both assigned to catalyze...”
- Genome annotation errors in pathway databases due to semantic ambiguity in partial EC numbers
Green, Nucleic acids research 2005 - “...EC 4.2.1.- appears in 10 KEGG pathway maps. In eight of these maps, two genes b0036 [Swiss-Prot entry P31551, Carnitinyl-CoA dehydratase (EC 4.2.1.-)] (example URL: ) and b1517 [Swiss-Prot entry P76143, Putative aldolase yneB (EC 4.2.1.-); hypothetical 31.9 kDa protein in hipBuxaB intergenic region] are both...”
- “...a set of 16 distinct reactions as shown in the Supplementary Materials. According to EcoCyc, b0036 and b1517 encode a carnitine racemase (EC 5.-.-.-) and a putative aldolase, respectively. The function of b0036 is supported by experimental evidence ( 11 ). VIMSS also assigns the same...”
ECH20_RHOJR / Q0S7P8 (7aS)-7a-methyl-1,5-dioxo-2,3,5,6,7,7a-hexahydro-1H-indene-carboxyl-CoA hydrolase; HIEC-CoA hydrolase; EC 4.1.99.- from Rhodococcus jostii (strain RHA1) (see paper)
30% identity, 73% coverage
- function: Involved in the final steps of cholesterol and steroid degradation (PubMed:28377529). Catalyzes the hydrolytic ring D opening of (7aS)-7a-methyl-1,5-dioxo-2,3,5,6,7,7a-hexahydro-1H-indene-carboxyl- CoA (HIEC-CoA) to (3E)-2-(2-carboxylatoethyl)-3-methyl-6-oxocyclohex-1- ene-1-carboxyl-CoA (COCHEA-CoA) (PubMed:28377529).
catalytic activity: (7aS)-7a-methyl-1,5-dioxo-2,3,5,6,7,7a-hexahydro-1H-indene- carboxyl-CoA + H2O = (3E)-2-(2-carboxylatoethyl)-3-methyl-6- oxocyclohex-1-ene-1-carboxyl-CoA + H(+) (RHEA:66360)
AWY96_RS24510 2,3-dehydroadipyl-CoA hydratase PaaF from Serratia plymuthica
32% identity, 80% coverage
SMc01641 PUTATIVE ENOYL-COA HYDRATASE PROTEIN from Sinorhizobium meliloti 1021
29% identity, 83% coverage
- Characterization of l-Carnitine Metabolism in Sinorhizobium meliloti
Bazire, Journal of bacteriology 2019 - “...were named Smc01637, Smc01638, Smc01639, Smc01640, and Smc01641. In summary, we considered that Smc01640 codes for BcoA/B, which forms -butyrobetainyl-CoA from...”
- “...BcoC, which oxidizes -butyrobetainyl-CoA to crotonobetainyl-CoA, Smc01641 codes for BcoD, which hydrates crotonobetainyl-CoA to L-carnitinyl-CoA, and Smc01638...”
- Proline betaine uptake in Sinorhizobium meliloti: Characterization of Prb, an opp-like ABC transporter regulated by both proline betaine and salinity stress
Alloing, Journal of bacteriology 2006 - “...acyl-CoA dehydrogenase; Smc01640, acyl-CoA synthetase; Smc01641, enoyl-CoA hydratase; Smc01646, unknown function. PROLINE BETAINE UPTAKE IN SINORHIZOBIUM...”
A1WF10 Short chain enoyl-CoA hydratase from Verminephrobacter eiseniae (strain EF01-2)
30% identity, 80% coverage
SPA0071 carnitine racemase from Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150
SC0064 carnitine racemase from Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67
31% identity, 80% coverage
G8E09_11775 enoyl-CoA hydratase from Acinetobacter pittii
27% identity, 81% coverage
- Phenotypic Variation and Carbapenem Resistance Potential in OXA-499-Producing Acinetobacter pittii
Zhang, Frontiers in microbiology 2020 - “...G8E09_08635 Aromatic ring-hydroxylating dioxygenase subunit alpha 2.12 0.0001 0.0073 G8E09_10085 Dihydrolipoyl dehydrogenase 2.12 0.0000 0.0018 G8E09_11775 Enoyl-CoA hydratase 2.10 0.0006 0.0196 G8E09_08705 Catechol 1,2-dioxygenase 2.10 0.0000 0.0008 G8E09_00265 DUF1328 domain-containing protein 2.08 0.0004 0.0151 G8E09_09085 NAD(P)H-binding protein 2.06 0.0000 0.0000 G8E09_08640 Hypothetical protein 2.02 0.0019 0.0437...”
SERP0632 naphthoate synthase from Staphylococcus epidermidis RP62A
29% identity, 83% coverage
LIC_12495 enoyl-CoA hydratase-related protein from Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130
28% identity, 78% coverage
MENB_ARATH / Q8GYN9 1,4-dihydroxy-2-naphthoyl-CoA synthase, peroxisomal; DHNS; Enoyl-CoA hydratase/isomerase D; ECHID; Naphthoate synthase; EC 4.1.3.36 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
NP_176255 enoyl-CoA hydratase/isomerase D from Arabidopsis thaliana
AT1G60550 ECHID (ENOYL-COA HYDRATASE/ISOMERASE D); catalytic/ naphthoate synthase from Arabidopsis thaliana
30% identity, 73% coverage
- function: Involved in the biosynthesis of phylloquinone (vitamin K1). Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4-dihydroxy-2-naphthoyl- CoA (DHNA-CoA) (By similarity).
catalytic activity: 2-succinylbenzoyl-CoA + H(+) = 1,4-dihydroxy-2-naphthoyl-CoA + H2O (RHEA:26562)
cofactor: hydrogencarbonate (The hydrogencarbonate anion plays the same catalytic role (proton acceptor) as the side-chain carboxylate group of the essential 'Asp- 185' found in actinobacteria, archaea, bacteroidetes, and deltaproteobacteria.)
subunit: Homohexamer. - Inactivation and deficiency of core proteins of photosystems I and II caused by genetical phylloquinone and plastoquinone deficiency but retained lamellar structure in a T-DNA mutant of Arabidopsis.
Shimada, The Plant journal : for cell and molecular biology 2005 (PubMed)- GeneRIF: The role of the gene in the biosynthesis of phylloquinone and plastoquinone for incorporation into the photosynthetic centers of chloroplasts.
- Multilevel Regulation of Peroxisomal Proteome by Post-Translational Modifications
Sandalio, International journal of molecular sciences 2019 - “...N-acyltransferases (NAT) superfamily protein na; nt; ph AT1G76150 enoyl-CoA hydratase 2 na; nt; ro; ps AT1G60550 enoyl-CoA hydratase/isomerase D ph; ps AT2G30200 EMBRYO DEFECTIVE 3147 ac; mo; nt; ph AT3G05970 long-chain acyl-CoA synthetase 6 nt; ps AT3G06810 acyl-CoA dehydrogenase-like protein ac; na; ph; ps AT3G06860 multifunctional...”
- Transcriptional Regulation of Tetrapyrrole Biosynthesis in Arabidopsis thaliana
Kobayashi, Frontiers in plant science 2016 - “...Locus codes of PhANGs: ABC1K8 , At5g64940; CLA1 , At4g15560; cpSRP43 , At2g47450; ECHID , At1g60550; GLK2 , At5g44190; HCF107 , At3g17040; LIL3:1 , At4g17600; LIL3:2 , At5g47110; PSBP1 , At1g06680. The c2 cluster is the largest cluster and widely includes genes for reactions from the...”
- Fine mapping of a dominant gene conferring chlorophyll-deficiency in Brassica napus
Wang, Scientific reports 2016 - “...Darmor- bzh , BnaA09g42360D may be related to Chl biosynthesis because it is homologous to AT1G60550, which encodes DHNS (DHNA synthase) that is involved in phylloquinone biosynthesis and research has confirmed that it participated in Chl biosynthesis 30 . As BnaA09g42360D has no homologous genes in...”
- “...AT2G22770 NAI1 DNA binding, protein dimerization activity, sequence-specific DNA binding transcription factor activity BnaA09g42360D 2948784329488100 AT1G60550 DHNS, ECHID, ENOYL-COA HYDRATASE/ISOMERASE D 1,4-dihydroxy-2-naphthoyl-CoA synthase activity, isomerase activity existence 3084688130846362 BnaC08g49170D C08_random 40845614085051 Bol044731 3510077635101228 AT5G20980 ATMS3, METHIONINE SYNTHASE 3, MS3 5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity, methionine synthase activity, zinc...”
- The Choice between MapMan and Gene Ontology for Automated Gene Function Prediction in Plant Science
Klie, Frontiers in genetics 2012 - “...Comparison of the concepts used in the annotation of the gene coding for naphthoate synthase (at1g60550, 264920_at) in the DAG and tree structure of GO DAG and MapMan, respectively . A disadvantage of the DAG structure, compared to a tree, is that the depth of a...”
- Defining the plant peroxisomal proteome: from Arabidopsis to rice
Kaur, Frontiers in plant science 2011 - “...LOC_Os03g59080 SKL Shockey et al. ( 2003 ), Wiszniewski et al. ( 2009 ) NS At1g60550 Naphthoate synthase RLx 5 HL LOC_Os01g47350 RLx 5 HL Reumann et al. ( 2007 ) LOC_Os02g43720 RAx 5 HL ECI At1g65520 Monofunctional enoyl CoA hydratase/isomerase c SKL LOC_Os05g45300* SKL Eubel...”
- The proteome map of spinach leaf peroxisomes indicates partial compartmentalization of phylloquinone (vitamin K1) biosynthesis in plant peroxisomes
Babujee, Journal of experimental botany 2010 (PubMed)- “...two enoyl-CoA hydratases/isomerases (ECHIa, At4g16210, SKL>; NS/ECHId, At1g60550, RLx5HL). The peroxisomal localization of the three proteins was confirmed in...”
- “...(ECHIa, At4g16210, 265 residues; SKL>, NS/ECHId, At1g60550, 337 residues, RLx5HL) were isolated from RNA using appropriate oligonucleotide primers...”
blr3445 blr3445 from Bradyrhizobium japonicum USDA 110
32% identity, 81% coverage
GAH_00487 3-hydroxyacyl-CoA dehydrogenase/enoyl-CoA hydratase family protein from Geoglobus ahangari
28% identity, 38% coverage
- The complete genome sequence and emendation of the hyperthermophilic, obligate iron-reducing archaeon "Geoglobus ahangari" strain 234(T)
Manzella, Standards in genomic sciences 2015 - “...catalyzed by an enoyl-CoA hydratase, which in G. ahangari could be encoded by 4 genes (GAH_00487, GAH_00802, GAH_01332, and GAH_01602). Two of these genes (GAH_00487 and GAH_01602) are in fact hybrid proteins containing an enoyl-CoA hydratase domain fused to a 3-hydroxyacyl-CoA dehydrogenase domain. Hybrid enoyl-CoA hydratase/dehydrogenase...”
- “...a 3-hydroxyl-CoA dehydrogenase protein, which in G. ahangari is likely encoded by several genes (GAH_00328, GAH_00487, GAH_01600, GAH_01602 again noting the hybrid nature of GAH_00487 and GAH_01602). Finally, acetyl-CoA is removed from the 3-oxo-acyl-CoA molecule by an acetyl-CoA acetyltransferase and is free to enter the TCA...”
bamR / Q2LXU6 cyclohexa-1,5-dienecarbonyl-CoA hydratase monomer (EC 4.2.1.100) from Syntrophus aciditrophicus (strain SB) (see paper)
SYN_01653 putative enoyl-CoA hydratase from Syntrophus aciditrophicus SB
SYN_RS14220 enoyl-CoA hydratase/isomerase family protein from Syntrophus aciditrophicus SB
27% identity, 82% coverage
- The Acyl-Proteome of Syntrophus aciditrophicus Reveals Metabolic Relationships in Benzoate Degradation
Muroski, Molecular & cellular proteomics : MCP 2022 - “...SYN_02896 Benzoate-CoA ligase (Bcl2) 13 SYN_01681 Acetyl-CoA acetyltransferase 14 SYN_02586 Cyclohexane -1- carbonyl-CoA dehydrogenase 15 SYN_01653 Enoyl-CoA hydratase 16 SYN_02635 Acetyl-CoA synthetase (Acs1) 17 SYN_03128 Cyclohexane -1- carboxylate-CoA ligase ( 12 ) 18 SYN_01654 6- Oxocyclohex -1- ene -1- carbonyl-CoA hydrolase 19 a SYN_02898, SYN_02896 4-...”
- “...found in numerous anaerobic delta-proteobacteria ( 45 , 46 ). The gene products of bamR (SYN_01653), bamQ (SYN_01655), and bamA (SYN_01654), which successively reduce cyclohexa -1,5- diene -1- carboxyl-CoA to 3- hydroxypimelyl-CoA, display modifications. All three gene products are acetylated, those of bamQ and bamA are...”
- Syntrophus aciditrophicus uses the same enzymes in a reversible manner to degrade and synthesize aromatic and alicyclic acids
James, Environmental microbiology 2019 - “...under the four different growth conditions examined ( Fig. 1 ). The activities of BamR (SYN_RS14220 gene product) and BamA (SYN_RS14215 gene product) have been previously demonstrated in S. aciditrophicus ( Peters et al., 2007 ; Kuntze et al., 2008 ; Lffler et al., 2011 )....”
MENB_STAAC / Q5HH38 1,4-dihydroxy-2-naphthoyl-CoA synthase; DHNA-CoA synthase; EC 4.1.3.36 from Staphylococcus aureus (strain COL) (see 2 papers)
NWMN_0915 naphthoate synthase from Staphylococcus aureus subsp. aureus str. Newman
SAOUHSC_00985 enoyl-CoA hydratase/isomerase family protein, putative from Staphylococcus aureus subsp. aureus NCTC 8325
SAUSA300_0948 naphthoate synthase from Staphylococcus aureus subsp. aureus USA300_FPR3757
SACOL1054 naphthoate synthase from Staphylococcus aureus subsp. aureus COL
SAA6008_01000, SAPIG1043 1,4-dihydroxy-2-naphthoyl-CoA synthase from Staphylococcus aureus subsp. aureus str. JKD6008
29% identity, 82% coverage
- function: Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4-dihydroxy-2- naphthoyl-CoA (DHNA-CoA).
catalytic activity: 2-succinylbenzoyl-CoA + H(+) = 1,4-dihydroxy-2-naphthoyl-CoA + H2O (RHEA:26562)
cofactor: hydrogencarbonate (The hydrogencarbonate anion plays the same catalytic role (proton acceptor) as the side-chain carboxylate group of the essential 'Asp- 185' found in actinobacteria, archaea, bacteroidetes, and deltaproteobacteria.)
subunit: Homodimer. Can also form trimers and higher oligomers. - Thioredoxin Profiling of Multiple Thioredoxin-Like Proteins in Staphylococcus aureus
Peng, Frontiers in microbiology 2018 - “...2 Y Active site 3P7X Sau NWMN_0704 ABC transporter ATP-binding protein 48 N 3 Y/N NWMN_0915 memB 1,4-dihydroxy-2-naphthoyl-CoA synthase 129 N 4 Y Buried 2UZF Sau NWMN_2029 fbaA Fructose-bisphosphate aldolase 93 N 2 Y Solvated 4TO8 Sau NWMN_0526 Uncharacterized (glycosyl transferase family 1) 282 N 5...”
- Synthetic Cinnamides and Cinnamates: Antimicrobial Activity, Mechanism of Action, and In Silico Study
de, Molecules (Basel, Switzerland) 2023 - “...caTOP2 6 DNA topoisomerase 2 Homology S. aureus Q5HED0 saACPS 18 4-phosphopantetheinyl transferase AcpS PDB Q5HH38 saMENB 18 1,4-dihydroxy-2-naphthoyl-CoA synthase PDB Q7A6I1 saPPIASE-1 18 Peptidyl-prolyl cis-trans isomerase (PPIase) Homology A0A1Q8DEF0 saPPIASE-2 18 Peptidyl-prolyl cis-trans isomerase (PPIase) Homology T1YB03 saGAR 18 2,5-diketo-D-gluconic acid reductase Homology A0A8B1CIU3 saALDH...”
- Spectral Library Based Analysis of Arginine Phosphorylations in Staphylococcus aureus
Junker, Molecular & cellular proteomics : MCP 2018 - “...Phosphosite R(ph)DPDFDQFPK GLDINQISLEER(ph)MQER LGR(ph)TSDQR M(ox)NYIR(ph)ILPGDK QINVPGFR(ph)K Q5HH38 Q5HIF5 Q5HDY5 Q5HDY0 Q5HF97 menB pdxS rplQ infA tig R262...”
- Proteomic and Metabolomic Analyses of a Tea-Tree Oil-Selected Staphylococcus aureus Small Colony Variant
Torres, Antibiotics (Basel, Switzerland) 2019 - “...4.6 SAOUHSC_00838 YwqG 292 aa protein uncharacterized 1.9 SAOUHSC_00933 TrpS tryptophanyl-tRNA synthetase protein synthesis 1.2 SAOUHSC_00985 MenB 1,4-dihydroxy-2-naphthoyl-CoA synthase cofactors and secondary metabolites 1.4 SAOUHSC_01040 PdhA pyruvate dehydrogenase complex, E1 subunit alpha carbohydrate metabolism 1.5 SAOUHSC_01041 PdhB pyruvate dehydrogenase complex, E1 subunit beta carbohydrate metabolism 1.5...”
- Heparin Mimics Extracellular DNA in Binding to Cell Surface-Localized Proteins and Promoting Staphylococcus aureus Biofilm Formation
Mishra, mSphere 2017 - “...None SAUSA300_0135 Superoxide dismutase 6 9 43 None SAUSA300_2067 Serine hydroxymethyltransferase 7 8 21 None SAUSA300_0948 Naphthoate synthase 5 4 16 None SAUSA300_0141 Phosphopentomutase 6 5 18 None SAUSA300_1657 Acetate kinase 8 10 28 None SAUSA300_2187 30S ribosomal protein S5 5 12 42 GRRFRF SAUSA300_1725 Transaldolase...”
- Genetic changes that correlate with the pine-oil disinfectant-reduced susceptibility mechanism of Staphylococcus aureus
Lamichhane-Khadka, Journal of applied microbiology 2008 - “...SACOL1114 Mn2 + /Fe2 + transporter, NRAMP family 1.61 SACOL2246 putative sugar transporter 1.57 menB SACOL1054 naphthoate synthase 1.57 SACOL0957 peptidyl-prolyl cis-trans isomerase, cyclophilin-type 1.56 SACOL1592 rhodanese-like domain protein 1.53 menA SACOL1500 conserved hypothetical protein 1.53 SACOL1049 1,4-dihydroxy-2-naphthoate octaprenyltransferase 1.52 SACOL1522 elastin binding protein, putative 1.49...”
- Identification of the genetic basis for clinical menadione-auxotrophic small-colony variant isolates of Staphylococcus aureus
Lannergård, Antimicrobial agents and chemotherapy 2008 - “...SACOL1052; (orf encoding putative hydrolase), SACOL1053; menB, SACOL1054; gerC, SACOL1510; ubiE (menG), SACOL1511; (menC), SACOL1843; and (menE), SACOL1844. The...”
- High-Throughput Mutagenesis Reveals a Role for Antimicrobial Resistance- and Virulence-Associated Mobile Genetic Elements in Staphylococcus aureus Host Adaptation
Ba, Microbiology spectrum 2023 - “...1110272-1111372 SAPIG1464 aroA 3-phosphoshikimate 1-carboxyvinyltransferase E Human 1572201-1573499 SAPIG1465 aroB 3-Dehydroquinate synthase E Human 1573509-1574573 SAPIG1043 menB 1,4-Dihydroxy-2-naphthoyl-CoA synthase H Human 1091740-1092561 SAPIG1054 fmtA Teichoic acid d -Ala esterase FmtA V Human/pig 1105865-1107058 SAPIG1445 gpsB Cell division protein GpsB D Human 1553361-1553705 SAPIG1603 aroK Shikimate kinase...”
- Evolution of multidrug resistance during Staphylococcus aureus infection involves mutation of the essential two component regulator WalKR
Howden, PLoS pathogens 2011 - “...reductase A311T 4 T insertion (1015671) SAA6008_00955 CHP Premature stop 5 T to C (1062271) SAA6008_01000 menB Naphthoate synthase Silent 6 C to T (2443041) SAA6008_02331 sarR Staphylococcal accessory regulator R A68T 7 G to A (2892543) SAA6008_02743 ABC transporter ATP binding protein Silent NB ....”
DMB42_RS42710 enoyl-CoA-hydratase DpgD from Nonomuraea sp. WAC 01424
29% identity, 81% coverage
SA0898 naphthoate synthase from Staphylococcus aureus subsp. aureus N315
29% identity, 82% coverage
LOC118264501 methylglutaconyl-CoA hydratase, mitochondrial from Spodoptera frugiperda
26% identity, 79% coverage
- Genome-Wide Identification and Expression Profiling of Candidate Sex Pheromone Biosynthesis Genes in the Fall Armyworm (Spodoptera frugiperda)
Qu, Insects 2022 - “...SfruECH2 LOC118277211 343 NC_049733.1 10,231,633 10,237,455 putative enoyl-CoA hydratase AID66686.1 Agrotis segetum 0.0 77.42 SfruECH3 LOC118264501 298 NC_049715.1 2,819,343 2,822,884 enoyl-CoA hydratase domain-containing protein 2, mitochondrial-like XP_047024252.1 Helicoverpa zea 5 10 180 89.23 Hydroxyacyl-coenzyme A (HCD) (-oxidation enzyme) SfruHCD1 LOC118272082 313 NC_049725.1 1,232,063 1,234,251 hydroxyacyl-coenzyme A...”
H16_A3593 / Q0K5S0 enoyl-CoA hydratase (EC 4.2.1.17) from Cupriavidus necator (strain ATCC 17699 / DSM 428 / KCTC 22496 / NCIMB 10442 / H16 / Stanier 337) (see paper)
H16_A3593 Enoyl-CoA hydratase from Ralstonia eutropha H16
28% identity, 81% coverage
EUBREC_1017 3-hydroxybutyryl-coA dehydratase from Eubacterium rectale ATCC 33656
30% identity, 83% coverage
bbsH / Q9KJE7 (2S)-2-[(R)-hydroxybenzyl]succinyl-CoA monomer (EC 4.2.1.180) from Thauera aromatica (see 2 papers)
BBSH_THAAR / Q9KJE7 (E)-benzylidenesuccinyl-CoA hydratase; EC 4.2.1.180 from Thauera aromatica (see 2 papers)
30% identity, 83% coverage
- function: Involved in an anaerobic toluene degradation pathway (PubMed:34601806). Catalyzes the hydration of (E)-2- benzylidenesuccinyl-CoA to the corresponding alcohol intermediate, 2- (alpha-hydroxybenzyl)succinyl-CoA (PubMed:34601806). Also accepts the N-acetylcysteamine (NAC) thioester of (E)-benzylidenesuccinate (PubMed:34601806).
catalytic activity: (2S)-[(R)-hydroxy(phenyl)methyl]succinyl-CoA = (E)-2- benzylidenesuccinyl-CoA + H2O (RHEA:70227)
subunit: Homotrimer.
FRAAL4765 Putative enoyl-CoA hydratase from Frankia alni ACN14a
33% identity, 30% coverage
- Genomic Insights of Alnus-Infective Frankia Strains Reveal Unique Genetic Features and New Evidence on Their Host-Restricted Lifestyle
Kim, Genes 2023 - “...protein FRAAL1256 TM I Lipid transport and metabolism FRAAL2505 atoD Acetoacetyl-CoA transferase FRAAL2504, FRAAL3148, FRAAL3149 FRAAL4765 Putative enoyl-CoA hydratase FRAAL2509, FRAAL2514, FRAAL3092, FRAAL3517, FRAAL3973, FRAAL5910, FRAAL6774 FRAAL1660 Putative Acyl-CoA dehydrogenase FRAAL6459 J Translation, ribosomal structure and biogenesis FRAAL4260 Putative glutamyl-tRNA(Gln) amidotransferase, subunit A FRAAL0363, FRAAL3665, FRAAL6013,...”
rrnAC0833 enoyl-CoA hydratase from Haloarcula marismortui ATCC 43049
31% identity, 81% coverage
- Genome information management and integrated data analysis with HaloLex
Pfeiffer, Archives of microbiology 2008 - “...OE2138F, NP1596A rrnAC0801 951 1,071 Shortened NP4302A, OE3145F, HQ2933A rrnAC0825 1,284 1,383 Shortened NP4134A, HQ2196A rrnAC0833 795 858 Shortened NP1462A, OE1641R, HQ2394A rrnAC0838 1,779 1,827 Shortened NP2726A, HQ1873A, OE2653R rrnAC0841 954 1,062 Shortened NP2730A, OE2561R, HQ1874A rrnAC0843 1,524 1,587 Shortened NP2738A, OE2555R, HQ2402A rrnAC0852 1,017 966...”
ech / CAC18324.1 enoyl-CoA hydratase/aldolase from Amycolatopsis sp. HR167 (see paper)
29% identity, 85% coverage
Pf6N2E2_2193 Methylglutaconyl-CoA hydratase (EC 4.2.1.18) from Pseudomonas fluorescens FW300-N2E2
26% identity, 82% coverage
- mutant phenotype: Specifically important for utilizing L-Leucine. Automated validation from mutant phenotype: the predicted function (METHYLGLUTACONYL-COA-HYDRATASE-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
NP_001009275 enoyl-Coenzyme A delta isomerase 3 from Rattus norvegicus
28% identity, 69% coverage
SCO4930 enoyl-CoA hydratase from Streptomyces coelicolor A3(2)
30% identity, 81% coverage
- Origin of the 3-methylglutaryl moiety in caprazamycin biosynthesis
Bär, Microbial cell factories 2022 - “...single gene inactivation by transposon insertion of those candidate genes ( sco1838 , sco4384 , sco4930 and sco6732 ) in a Liu-pathway deficient background could not impair caprazamycin aglycon production in a mutant harboring the complete caprazamycin gene cluster (Additional file 1 : Figs. S27S30). This...”
SSO2017 Enoyl CoA hydratase (paaF-4) from Sulfolobus solfataricus P2
28% identity, 86% coverage
AO356_01590 Methylglutaconyl-CoA hydratase (EC 4.2.1.18) from Pseudomonas fluorescens FW300-N2C3
26% identity, 82% coverage
- mutant phenotype: Specifically important for utilizing L-Leucine. Automated validation from mutant phenotype: the predicted function (METHYLGLUTACONYL-COA-HYDRATASE-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
FN0271 Enoyl-CoA hydratase from Fusobacterium nucleatum subsp. nucleatum ATCC 25586
30% identity, 82% coverage
- Autoaggregation response of Fusobacterium nucleatum
Merritt, Applied and environmental microbiology 2009 - “...R Fn0078 RT-f Fn0078 RT-r Fn0085 RT-f Fn0085 RT-r Fn0271 RT-f Fn0271 RT-r Fn0650 RT-f Fn0650 RT-r Fn0796 RT-f Fn0796 RT-r Fn0941 RT-f Fn0941 RT-r Fn1586 RT-f...”
- “...16S rRNA 16S rRNA FN0078 FN0078 FN0085 FN0085 FN0271 FN0271 FN0650 FN0650 FN0796 FN0796 FN0941 FN0941 FN1586 FN1586 FN1803 FN1803 FN1900 FN1900 FN1988 FN1988...”
CTCNB1_RS06525 enoyl-CoA hydratase from Comamonas thiooxydans
30% identity, 67% coverage
- Degradation of Bile Acids by Soil and Water Bacteria
Feller, Microorganisms 2021 - “...(ORF21) RHA1_RS22400 ** (FadE31) Nov2c356 ACAD C211_RS11250 CTCNB1_RS06545 (ORF22) RHA1_RS22395 ** (FadE32) Nov2c357 Hydratase C211_RS11230 CTCNB1_RS06525 (ScdN) RHA1_RS22405 Nov2c353 2-hydroxy-hexa-2,4-dienoate degradation 2-Hydroxypenta-2,4-dienoate hydratase C211_RS10995 CTCNB1_RS06905 (TesE) RHA1_RS28310 (HsaE3) Nov2c346 Acetaldehyde dehydrogenase C211_RS10985 CTCNB1_RS06895 (TesG) RHA1_RS28315 (HsaG3) Nov2c344 4-Hydroxy-2-ketovalerate aldolase C211_RS10990 CTCNB1_RS06900 (TesF) RHA1_RS28320 (HsaF3) Nov2c345 Transformation...”
CC1_14660 enoyl-CoA hydratase-related protein from Coprococcus catus GD/7
31% identity, 78% coverage
ANACAC_00255 hypothetical protein from Anaerostipes caccae DSM 14662
31% identity, 78% coverage
Fer4 / Q4PEN0 methylglutaconyl-CoA hydratase (EC 4.2.1.18) from Ustilago maydis (strain 521 / FGSC 9021) (see 2 papers)
FER4_USTMA / Q4PEN0 Enoyl-CoA isomerase/hydratase fer4; Fe-regulated protein 4; Ferrichrome A biosynthesis protein fer4; EC 4.2.1.17 from Ustilago maydis (strain 521 / FGSC 9021) (Corn smut fungus) (see 2 papers)
UMAG_01433 uncharacterized protein from Ustilago maydis 521
28% identity, 83% coverage
- function: Enoyl-CoA isomerase/hydratase; part of the gene cluster that mediates the biosynthesis of siderophore ferrichrome A which is contributing to organismal virulence (PubMed:17138696, PubMed:20070524). The first step of ferrichrome A biosynthesis is performed by the HMG-CoA synthase hcs1 which catalyzes the generation of HMG-CoA and CoA using acetoacetyl-CoA and acetyl-CoA as substrates (PubMed:20070524). The enoyl-CoA isomerase/hydratase fer4 then catalyzes the conversion of hcs1-produced HMG-CoA to methylglutaconyl- CoA (PubMed:20070524). The acyltransferase fer5 then fuses the fer4- generated methylglutaconyl-CoA with sid1-generated hydroxyornithine to yield methylglutaconyl hydroxyornithine (PubMed:20070524). Methylglutaconyl hydroxyornithine is then available for use by the NRPS fer3 to generate ferrichrome A (PubMed:20070524).
catalytic activity: a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O (RHEA:16105)
catalytic activity: a 4-saturated-(3S)-3-hydroxyacyl-CoA = a (3E)-enoyl-CoA + H2O (RHEA:20724)
disruption phenotype: Impairs the production of ferrichrome A but does not affect the production of ferrichrome (PubMed:20070524). - Global Gene Expression of Post-Senescent Telomerase-Negative ter1Δ Strain of Ustilago maydis
Sanpedro-Luna, Journal of fungi (Basel, Switzerland) 2023 - “...Fer6multidrug resistance protein fer6 2 1.163 3.861 2.674 UMAG_01432 Fer5acyltransferase fer5 2 0.767 3.711 2.92 UMAG_01433 Fer4enoyl-CoA isomerase/hydratase fer4 2 0.613 6.571 5.924 UMAG_01690 Putative protein of unknown function 7 3.949 2.207 UMAG_01695 Stp6Putative protein of unknown function 10 5.615 0.842 UMAG_01788 Related to chitin deacetylase...”
- Construction and analysis of gene co-expression network in the pathogenic fungus Ustilago maydis
Soberanes-Gutiérrez, Frontiers in microbiology 2022 - “...al., 2021 ). These genes mostly co-expressed with UMAG_01434, UMAG_11338, UMAG_11338, UMAG_02512, UMAG_01431, UMAG_11339, and UMAG_01433 hypothetical genes ( Figure 5B ). Finally, the Yellow module contains 26 genes related to virulence. It is the most diverse module in relation to associated diseases with nine genes...”
- “...as, two genes with protease domains: UMAG_02263 with Peptidase C15, pyroglutamyl peptidase I-like superfamily and UMAG_01433 with ClpP/crotonase-like domain superfamily. Table 3 Probable targets most co-expressed with virulence genes. Probable target Co-expressed virulence genes Related disease Domain description Module UMAG_10951 UMAG_02538 Corn smut AMP-binding enzyme, C-terminal...”
- mRNA Inventory of Extracellular Vesicles from Ustilago maydis
Kwon, Journal of fungi (Basel, Switzerland) 2021 - “...dpi) Magenta (biotrophy) UMAG_00145 serine/threonine protein kinase 827 4.28 0.06 0.54 (12 dpi) Cyan (tumour) UMAG_01433 enoyl-CoA isomerase/hydratase fer4 in siderophore ferrichrome A biosynthesis 267 4.26 0.09 4.21 (8 dpi) Burlywood UMAG_02006 secreted peptidase 498 4.24 4.61 8.29 (1 dpi) Red (Plant surface) UMAG_11874 uncharacterised protein...”
- In silico prediction and characterization of secondary metabolite biosynthetic gene clusters in the wheat pathogen Zymoseptoria tritici
Cairns, BMC genomics 2017 - “...% similarity Sequence coverage E value Siderophore (14) Mycgr3G40534 EGP88586 Non-ribosomal peptide synthetase Ustilago maydis UMAG_01433 23562457 Ferrichrome siderophore peptide synthetase fer3 48% 82% 8,00E-61 Mycgr3G85486 EGP87766 putative siderophore biosynthesis protein UMAG_01432 23562456 Putative lysine N-acyltransferase fer5 43% 89% 8,00E-103 Mycgr3G41235 EGP87768 putative ABC transporter UMAG_01431...”
- “...iron transporter UMAG_01439 23562463 Siderophore iron transporter 3 fer7 39% 93% 3,00E-114 (Mycgr3G76805) Hypothetical protein UMAG_01433 putative enoyl-CoA hydratase/isomerase fer4 39% 83% 2e-46 (Mycgr3G5470) HMG-CoA synthase (UMAG_05362) HMG-CoA synthase 54% 98% 3,00E-180 DHN melanin (29) Mycgr3G87993 EGP83310 Hypothetical protein Magnaporthe oryzae MGG_07215 EHA55622 Transcription factor cmr1...”
BQ2027_MB3408 enoyl-CoA hydratase/isomerase family protein from Mycobacterium tuberculosis variant bovis AF2122/97
30% identity, 79% coverage
- Small RNA Profiling in Mycobacterium Provides Insights Into Stress Adaptability
Chen, Frontiers in microbiology 2021 - “...protein. Probable membrane protein 31.1 BQ2027_MB1812 eccc5 Esx-5 type VII secretion system protein 30.9 ncBCG356 BQ2027_MB3408 echA18 Probable enoyl-CoA hydratase (unsaturated acyl-CoA hydratase) 52.3 BQ2027_MB3918C espg2 Esx-2 secretion-associated protein 51.3 BQ2027_MB3542C fadD18 Probable fatty-acid-CoA ligase (fatty-acid-CoA synthetase) 48.4 ncBCG427 JTY_RS06565 JTY_1269 Membrane protein 20.7 JTY_RS08105 lspA...”
SGO_1700 enoyl-CoA hydratase/isomerase family protein from Streptococcus gordonii str. Challis substr. CH1
28% identity, 81% coverage
For advice on how to use these tools together, see
Interactive tools for functional annotation of bacterial genomes.
The PaperBLAST database links 784,739 different protein sequences to 1,253,012 scientific articles. Searches against EuropePMC were last performed on November 25 2024.
PaperBLAST builds a database of protein sequences that are linked
to scientific articles. These links come from automated text searches
against the articles in EuropePMC
and from manually-curated information from GeneRIF, UniProtKB/Swiss-Prot,
BRENDA,
CAZy (as made available by dbCAN),
BioLiP,
CharProtDB,
MetaCyc,
EcoCyc,
TCDB,
REBASE,
the Fitness Browser,
and a subset of the European Nucleotide Archive with the /experiment tag.
Given this database and a protein sequence query,
PaperBLAST uses protein-protein BLAST
to find similar sequences with E < 0.001.
To build the database, we query EuropePMC with locus tags, with RefSeq protein
identifiers, and with UniProt
accessions. We obtain the locus tags from RefSeq or from MicrobesOnline. We use
queries of the form "locus_tag AND genus_name" to try to ensure that
the paper is actually discussing that gene. Because EuropePMC indexes
most recent biomedical papers, even if they are not open access, some
of the links may be to papers that you cannot read or that our
computers cannot read. We query each of these identifiers that
appears in the open access part of EuropePMC, as well as every locus
tag that appears in the 500 most-referenced genomes, so that a gene
may appear in the PaperBLAST results even though none of the papers
that mention it are open access. We also incorporate text-mined links
from EuropePMC that link open access articles to UniProt or RefSeq
identifiers. (This yields some additional links because EuropePMC
uses different heuristics for their text mining than we do.)
For every article that mentions a locus tag, a RefSeq protein
identifier, or a UniProt accession, we try to select one or two
snippets of text that refer to the protein. If we cannot get access to
the full text, we try to select a snippet from the abstract, but
unfortunately, unique identifiers such as locus tags are rarely
provided in abstracts.
PaperBLAST also incorporates manually-curated protein functions:
- Proteins from NCBI's RefSeq are included if a
GeneRIF
entry links the gene to an article in
PubMed®.
GeneRIF also provides a short summary of the article's claim about the
protein, which is shown instead of a snippet.
- Proteins from Swiss-Prot (the curated part of UniProt)
are included if the curators
identified experimental evidence for the protein's function (evidence
code ECO:0000269). For these proteins, the fields of the Swiss-Prot entry that
describe the protein's function are shown (with bold headings).
- Proteins from BRENDA,
a curated database of enzymes, are included if they are linked to a paper in PubMed
and their full sequence is known.
- Every protein from the non-redundant subset of
BioLiP,
a database
of ligand-binding sites and catalytic residues in protein structures, is included. Since BioLiP itself
does not include descriptions of the proteins, those are taken from the
Protein Data Bank.
Descriptions from PDB rely on the original submitter of the
structure and cannot be updated by others, so they may be less reliable.
(For SitesBLAST and Sites on a Tree, we use a larger subset of BioLiP so that every
ligand is represented among a group of structures with similar sequences, but for
PaperBLAST, we use the non-redundant set provided by BioLiP.)
- Every protein from EcoCyc, a curated
database of the proteins in Escherichia coli K-12, is included, regardless
of whether they are characterized or not.
- Proteins from the MetaCyc metabolic pathway database
are included if they are linked to a paper in PubMed and their full sequence is known.
- Proteins from the Transport Classification Database (TCDB)
are included if they have known substrate(s), have reference(s),
and are not described as uncharacterized or putative.
(Some of the references are not visible on the PaperBLAST web site.)
- Every protein from CharProtDB,
a database of experimentally characterized protein annotations, is included.
- Proteins from the CAZy database of carbohydrate-active enzymes
are included if they are associated with an Enzyme Classification number.
Even though CAZy does not provide links from individual protein sequences to papers,
these should all be experimentally-characterized proteins.
- Proteins from the REBASE database
of restriction enzymes are included if they have known specificity.
- Every protein with an evidence-based reannotation (based on mutant phenotypes)
in the Fitness Browser is included.
- Sequence-specific transcription factors (including sigma factors and DNA-binding response regulators)
with experimentally-determined DNA binding sites from the
PRODORIC database of gene regulation in prokaryotes.
- Putative transcription factors from RegPrecise
that have manually-curated predictions for their binding sites. These predictions are based on
conserved putative regulatory sites across genomes that contain similar transcription factors,
so PaperBLAST clusters the TFs at 70% identity and retains just one member of each cluster.
- Coding sequence (CDS) features from the
European Nucleotide Archive (ENA)
are included if the /experiment tag is set (implying that there is experimental evidence for the annotation),
the nucleotide entry links to paper(s) in PubMed,
and the nucleotide entry is from the STD data class
(implying that these are targeted annotated sequences, not from shotgun sequencing).
Also, to filter out genes whose transcription or translation was detected, but whose function
was not studied, nucleotide entries or papers with more than 25 such proteins are excluded.
Descriptions from ENA rely on the original submitter of the
sequence and cannot be updated by others, so they may be less reliable.
Except for GeneRIF and ENA,
the curated entries include a short curated
description of the protein's function.
For entries from BioLiP, the protein's function may not be known beyond binding to the ligand.
Many of these entries also link to articles in PubMed.
For more information see the
PaperBLAST paper (mSystems 2017)
or the code.
You can download PaperBLAST's database here.
Changes to PaperBLAST since the paper was written:
- November 2023: incorporated PRODORIC and RegPrecise. Many PRODORIC entries were not linked to a protein sequence (no UniProt identifier), so we added this information.
- February 2023: BioLiP changed their download format. PaperBLAST now includes their non-redundant subset. SitesBLAST and Sites on a Tree use a larger non-redundant subset that ensures that every ligand is represented within each cluster. This should ensure that every binding site is represented.
- June 2022: incorporated some coding sequences from ENA with the /experiment tag.
- March 2022: incorporated BioLiP.
- April 2020: incorporated TCDB.
- April 2019: EuropePMC now returns table entries in their search results. This has expanded PaperBLAST's database, but most of the new entries are of low relevance, and the resulting snippets are often just lists of locus tags with annotations.
- February 2018: the alignment page reports the conservation of the hit's functional sites (if available from from Swiss-Prot or UniProt)
- January 2018: incorporated BRENDA.
- December 2017: incorporated MetaCyc, CharProtDB, CAZy, REBASE, and the reannotations from the Fitness Browser.
- September 2017: EuropePMC no longer returns some table entries in their search results. This has shrunk PaperBLAST's database, but has also reduced the number of low-relevance hits.
Many of these changes are described in Interactive tools for functional annotation of bacterial genomes.
PaperBLAST cannot provide snippets for many of the papers that are
published in non-open-access journals. This limitation applies even if
the paper is marked as "free" on the publisher's web site and is
available in PubmedCentral or EuropePMC. If a journal that you publish
in is marked as "secret," please consider publishing elsewhere.
Many important articles are missing from PaperBLAST, either because
the article's full text is not in EuropePMC (as for many older
articles), or because the paper does not mention a protein identifier such as a locus tag, or because of PaperBLAST's heuristics. If you notice an
article that characterizes a protein's function but is missing from
PaperBLAST, please notify the curators at UniProt
or add an entry to GeneRIF.
Entries in either of these databases will eventually be incorporated
into PaperBLAST. Note that to add an entry to UniProt, you will need
to find the UniProt identifier for the protein. If the protein is not
already in UniProt, you can ask them to create an entry. To add an
entry to GeneRIF, you will need an NCBI Gene identifier, but
unfortunately many prokaryotic proteins in RefSeq do not have
corresponding Gene identifers.
References
PaperBLAST: Text-mining papers for information about homologs.
M. N. Price and A. P. Arkin (2017). mSystems, 10.1128/mSystems.00039-17.
Europe PMC in 2017.
M. Levchenko et al (2017). Nucleic Acids Research, 10.1093/nar/gkx1005.
Gene indexing: characterization and analysis of NLM's GeneRIFs.
J. A. Mitchell et al (2003). AMIA Annu Symp Proc 2003:460-464.
UniProt: the universal protein knowledgebase.
The UniProt Consortium (2016). Nucleic Acids Research, 10.1093/nar/gkw1099.
BRENDA in 2017: new perspectives and new tools in BRENDA.
S. Placzek et al (2017). Nucleic Acids Research, 10.1093/nar/gkw952.
The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.
I. M. Keeseler et al (2016). Nucleic Acids Research, 10.1093/nar/gkw1003.
The MetaCyc database of metabolic pathways and enzymes.
R. Caspi et al (2018). Nucleic Acids Research, 10.1093/nar/gkx935.
CharProtDB: a database of experimentally characterized protein annotations.
R. Madupu et al (2012). Nucleic Acids Research, 10.1093/nar/gkr1133.
The carbohydrate-active enzymes database (CAZy) in 2013.
V. Lombard et al (2014). Nucleic Acids Research, 10.1093/nar/gkt1178.
The Transporter Classification Database (TCDB): recent advances
M. H. Saier, Jr. et al (2016). Nucleic Acids Research, 10.1093/nar/gkv1103.
REBASE - a database for DNA restriction and modification: enzymes, genes and genomes.
R. J. Roberts et al (2015). Nucleic Acids Research, 10.1093/nar/gku1046.
Deep annotation of protein function across diverse bacteria from mutant phenotypes.
M. N. Price et al (2016). bioRxiv, 10.1101/072470.
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory