Family Search for PF05853 (BKACE)

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PF05853 hits 43 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

PS417_07250 2-deoxy-3-keto-D-ribonoate cleavage enzyme from Pseudomonas simiae WCS417
PS417_07250 3-keto-5-aminohexanoate cleavage protein from Pseudomonas simiae
Aligns to 6:302 / 310 (95.8%), covers 100.0% of PF05853, 376.0 bits

• mutant phenotype: # Specifically important in carbon source 2-Deoxy-D-Ribose; carbon source 2-Deoxy-D-ribonic acid lithium salt; this is a beta keto acid cleavage enzyme, see PMID:24240508
• Oxidative Pathways of Deoxyribose and Deoxyribonate Catabolism
  Price, mSystems 2019
  • “...dehydrogenase a dehydrogenase of the short-chain dehydrogenase/reductase (SDR) superfamily (PS417_07245) a -keto acid cleavage enzyme (PS417_07250) ( 12 ) a lactonase (PS417_07255) glycerate kinase (PS417_13970) and acetyl-CoA C-acetyltransferase (PS417_10515). The remaining genes that are specifically important for deoxyribose utilization are two putative transporters, two regulatory genes,...”
  • “...( Fig.2 ). Mutants of the SDR dehydrogenase (PS417_07245) or the -keto acid cleavage enzyme (PS417_07250) grow on glucose but not on deoxyribose or deoxyribonate ( Fig.2 ). FIG2 Growth curves for individual transposon mutants. We compared the growth of wild-type P. simiae WCS417 and of...”

BMAA0605 hypothetical protein from Burkholderia mallei ATCC 23344
Aligns to 6:302 / 310 (95.8%), covers 100.0% of PF05853, 372.3 bits

• Novel Burkholderia mallei virulence factors linked to specific host-pathogen protein interactions
  Memisević, Molecular & cellular proteomics : MCP 2013
  • “...4 BMAA1566 Serine-type carboxypeptidase 3 f Yes 4 BMAA1641 Hypothetical protein 3 f Yes 4 BMAA0605 Hypothetical protein 3 f Yes 4 BMAA1111 Hypothetical protein 3 f No 4 BMAA1648 Hypothetical protein 3 f Yes 9 4 BMAA1997 Phosphatidylserine decarboxylase 3 f Yes 4 BMAA2052 Polysaccharide...”

A6X2V8 3-keto-5-aminohexanoate cleavage protein from Brucella anthropi (strain ATCC 49188 / DSM 6882 / CCUG 24695 / JCM 21032 / LMG 3331 / NBRC 15819 / NCTC 12168 / Alc 37)
Aligns to 10:307 / 315 (94.6%), covers 100.0% of PF05853, 370.6 bits

• Oxidative Pathways of Deoxyribose and Deoxyribonate Catabolism.
  Price, mSystems 2019
  • “...our proposal. Specifically, in vitro assays of the -keto cleavage enzyme BKACE_178 (UniProt accession no. A6X2V8 ), which is 61% identical to PS417_07250, found that it had some activity with 5-hydroxy--ketohexanoate, -ketopentanoate, -ketoisocaproate, and -ketohexanoate as substrates ( 12 ). These substrates are similar to 2-deoxy-3-keto-ribonate...”

kce / Q8RHX2 3-keto,5-aminohexanoate cleavage enzyme subunit (EC 2.3.1.247) from Fusobacterium nucleatum subsp. nucleatum (strain ATCC 25586 / DSM 15643 / BCRC 10681 / CIP 101130 / JCM 8532 / KCTC 2640 / LMG 13131 / VPI 4355) (see 2 papers)
KCE_FUSNN / Q8RHX2 3-keto-5-aminohexanoate cleavage enzyme; EC 2.3.1.247 from Fusobacterium nucleatum subsp. nucleatum (strain ATCC 25586 / DSM 15643 / BCRC 10681 / CIP 101130 / JCM 8532 / KCTC 2640 / LMG 13131 / VPI 4355) (see 2 papers)
Q8RHX2 3-keto-5-aminohexanoate cleavage enzyme (EC 2.3.1.247) from Fusobacterium nucleatum subsp. nucleatum (see 2 papers)
FN1868 Hypothetical cytosolic protein from Fusobacterium nucleatum subsp. nucleatum ATCC 25586
Aligns to 4:270 / 272 (98.2%), covers 100.0% of PF05853, 367.4 bits

• function: Involved in the anaerobic fermentation of lysine. Catalyzes the reversible reaction between 3-keto-5-aminohexanoate (KAH) and acetyl-CoA to form 3-aminobutyryl-CoA and acetoacetate. The reaction involves the deprotonation of KAH, the nucleophilic addition onto acetyl-CoA and the intramolecular transfer of the CoA moiety. It can also use beta-alanyl-CoA as substrate.
  catalytic activity: (5S)-5-amino-3-oxohexanoate + acetyl-CoA = (3S)-3- aminobutanoyl-CoA + acetoacetate (RHEA:31555)
  subunit: Homotetramer.
• 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
  • “...49 ] 4- Aminobutyrate FN0621 (AAL94817) 4-hydroxybutyrate coenzyme A transferase (4Hbt/ACH1) [ 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...”
• Amplicon Competition Enables End-Point Quantitation of Nucleic Acids Following Isothermal Amplification
  Jiang, Chembiochem : a European journal of chemical biology 2017
  • “...RNA molecules, we analyzed signal thresholding in a reverse transcription (RT)LAMPOSD assay for Fusobacterium nucleatum FN1868 mRNA (FigureS4 and TableS1). In all cases, equal numbers of T T and T F targets led to observed fluorescence equal to roughly half of maximum fluorescence, whereas a one...”
  • “...enabling access to and amplification of the resident nucleic acid targets. The lysine fermentation gene FN1868 was first amplified from 10 3 , 10 4 , and 10 5 CFU of logphase F.nucleatum bacteria and thresholded with tenfold increments of false FN1868 T F to determine...”
• A novel acyl-CoA beta-transaminase characterized from a metagenome
  Perret, PloS one 2011
  • “...under accession number CU466930. The sequence of genes involved in the lysine fermentation pathway (FN1869, FN1868, FN1867, FN1866, FN1863, FN1862, Fusobacterium nucleatum ATCC 25586, AE009951 ) were compared to the Candidatus Cloacamonas acidaminovorans genome and to assembled genomic regions from the anaerobic digester using the BLAST2...”

H281DRAFT_00641 2-deoxy-3-keto-D-ribonate cleavage enzyme from Paraburkholderia bryophila 376MFSha3.1
Aligns to 7:304 / 312 (95.5%), covers 100.0% of PF05853, 367.0 bits

• mutant phenotype: Important for utilization of deoxyribose and deoxyribonate. This is expected to be the next step after the oxidation of deoxyribonate. It would release glyceryl-CoA and acetoacetate.

BPHYT_RS04760 3-keto-5-aminohexanoate cleavage protein from Paraburkholderia phytofirmans PsJN
Aligns to 5:302 / 310 (96.1%), covers 100.0% of PF05853, 366.6 bits

• Oxidative Pathways of Deoxyribose and Deoxyribonate Catabolism
  Price, mSystems 2019
  • “...deoxyribonate utilization ( Fig.6 ). In particular, deoxyribonate dehydrogenase (BPHYT_RS04775), the -keto acid cleavage enzyme (BPHYT_RS04760), and glycerate kinase (BPHYT_RS09440) are all important during growth on deoxyribonate, although -keto acid cleavage enzyme mutants have a milder phenotype. One unexplained result is that the acetyl-CoA C-acetyltransferase (BPHYT_RS09150)...”

3e49A / Q13GE9 Crystal structure of a prokaryotic domain of unknown function (duf849) with a tim barrel fold (bxe_c0966) from burkholderia xenovorans lb400 at 1.75 a resolution
Aligns to 3:299 / 307 (96.7%), covers 100.0% of PF05853, 362.9 bits

• Ligand: zinc ion (3e49A)

3lotD / O29058 Crystal structure of protein of unknown function (np_070038.1) from archaeoglobus fulgidus at 1.89 a resolution
Aligns to 6:305 / 313 (95.8%), covers 99.6% of PF05853, 360.7 bits

• Ligand: zinc ion (3lotD)

3e02A / Q13I95 Crystal structure of a duf849 family protein (bxe_c0271) from burkholderia xenovorans lb400 at 1.90 a resolution
Aligns to 6:301 / 310 (95.5%), covers 99.6% of PF05853, 360.7 bits

• Ligand: zinc ion (3e02A)

I6J59_05615 3-keto-5-aminohexanoate cleavage protein from Butyricimonas virosa
Aligns to 3:271 / 275 (97.8%), covers 100.0% of PF05853, 357.4 bits

• 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
  • “...FDAARGOS 1229 4- Aminobutyrate I6J59_04665 (QRO51906) Acetyl-CoA hydrolase/transferase family protein (ACH1) [ 65 ] Lysine I6J59_05615 (QRO51094) 3-keto-5-aminohexanoate cleavage protein (Kce/BKACE) [ 66 ] Pyruvate I6J59_17360 (QRO49639) I6J59_05415 (QRO51056) Pyruvate:ferredoxin (flavodoxin) oxidoreductase (Por, nifJ), Short-chain-enoyl-CoA hydratase (Crt) [ 66 ] P. gingivalis ATCC 33277 4-Aminobutyrate PGN_0725...”

PG1068 conserved hypothetical protein from Porphyromonas gingivalis W83
Aligns to 3:271 / 273 (98.5%), covers 100.0% of PF05853, 355.7 bits

• Tetratricopeptide repeat protein-associated proteins contribute to the virulence of Porphyromonas gingivalis
  Kondo, Infection and immunity 2010
  • “...Translation initiation factor IF-2 Guanylate kinase PG1068 PG1271 PG1490 Conserved hypothetical protein Acetylornithine aminotransferase, putative TraG family...”
• Response of Porphyromonas gingivalis to heme limitation in continuous culture
  Dashper, Journal of bacteriology 2009
  • “...4 PG0689 5 6 7 PG0690h PG0691h PG0692 8 PG1067 9 PG1068 10 11 PG1075h PG1076 12 PG1078 13 14 PG1079h PG1081 15 PG1082 16 PG1232 17 PG1271 18 PG1417 19 PG1612...”
  • “...whose abundances increased during heme limitation (PG1067 and PG1068, respectively). The conversion of fumarate to succinate via the pathway from aspartate is...”

PGN_1164 conserved hypothetical protein with prokaryotic DUF849 domain from Porphyromonas gingivalis ATCC 33277
Aligns to 1:268 / 270 (99.3%), covers 99.6% of PF05853, 354.6 bits

• 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
  • “...] P. gingivalis ATCC 33277 4-Aminobutyrate PGN_0725 (BAG33244) 4-hydroxybutyrate CoA-transferase (ACH1) [ 50 ] Lysine PGN_1164 (BAG33683) 3-keto-5-aminohexanoate cleavage enzyme (kce) [ 50 ] Pyruvate PGN_1418 (BAG33937) PGN_1175 (BAG33694) Pyruvate-flavodoxin oxidoreductase (Por/nifJ) Putative enoyl-CoA hydratase (Crt) [ 31 ] microorganisms-11-02004-t003_Table 3 Table 3 Association of butyrate...”
• Involvement of an Skp-Like Protein, PGN_0300, in the Type IX Secretion System of Porphyromonas gingivalis
  Taguchi, Infection and immunity 2016
  • “...PGN_1452 PGN_1476a PGN_1315 PGN_1367 PGN_0876 PGN_0876 PGN_0335a PGN_1695 PGN_1164 PGN_1587 PGN_2037 PGN_1167 114 129 95 129 79 141 116 116 95 141 62 92...”

KCE_CLOAI / B0VHH0 3-keto-5-aminohexanoate cleavage enzyme; EC 2.3.1.247 from Cloacimonas acidaminovorans (strain Evry) (see paper)
B0VHH0 3-keto-5-aminohexanoate cleavage enzyme (EC 2.3.1.247) from Candidatus Cloacimonas acidaminovorans (see paper)
kce / CAO80785.1 3-keto-5-aminohexanoate cleavage enzyme from Candidatus Cloacimonas acidaminovorans str. Evry (see paper)
Aligns to 3:274 / 276 (98.6%), covers 100.0% of PF05853, 349.3 bits

• function: Involved in the anaerobic fermentation of lysine. Catalyzes the reversible reaction between 3-keto-5-aminohexanoate (KAH) and acetyl-CoA to form 3-aminobutyryl-CoA and acetoacetate. The reaction involves the deprotonation of KAH, the nucleophilic addition onto acetyl-CoA and the intramolecular transfer of the CoA moiety.
  catalytic activity: (5S)-5-amino-3-oxohexanoate + acetyl-CoA = (3S)-3- aminobutanoyl-CoA + acetoacetate (RHEA:31555)
  cofactor: Zn(2+)
  subunit: Homotetramer.

2y7dD / B0VHH0 Crystal structure of the 3-keto-5-aminohexanoate cleavage enzyme (kce) from candidatus cloacamonas acidaminovorans (orthorombic form) (see paper)
Aligns to 6:277 / 278 (97.8%), covers 100.0% of PF05853, 349.2 bits

• Ligand: zinc ion (2y7dD)

SPO2703 3-keto-5-aminohexanoate cleavage protein from Ruegeria pomeroyi DSS-3
Aligns to 4:291 / 296 (97.3%), covers 99.6% of PF05853, 347.3 bits

• Experimental Identification of Small Non-Coding RNAs in the Model Marine Bacterium Ruegeria pomeroyi DSS-3
  Rivers, Frontiers in microbiology 2016
  • “...protein 0.003 SPO2852 CzcN domain-containing protein 0.003 SPO2542 Biotin/lipoate binding domain-containing protein Coenzyme metabolism 0.006 SPO2703 Hypothetical protein 0.008 SPO2977 Adenylate/guanylate cyclase Signal transduction 0.008 SPO3862 Putative lipoprotein Cell wall/membrane 0.009 trans46 141 SPO3330 Ribonuclease R Translation and biogenesis 0.001 SPO2342 Hypothetical protein 0.004 SPO1399 AraC...”

MXAN_4384 hypothetical protein from Myxococcus xanthus DK 1622
Aligns to 4:274 / 275 (98.5%), covers 100.0% of PF05853, 334.4 bits

• Antibiotics from predatory bacteria
  Korp, Beilstein journal of organic chemistry 2016 (no snippet)

SMc01637 CONSERVED HYPOTHETICAL PROTEIN from Sinorhizobium meliloti 1021
Aligns to 8:297 / 300 (96.7%), covers 99.6% of PF05853, 331.7 bits

• Characterization of l-Carnitine Metabolism in Sinorhizobium meliloti
  Bazire, Journal of bacteriology 2019
  • “...those from S. meliloti Rm2011 and were named Smc01637, Smc01638, Smc01639, Smc01640, and Smc01641. In summary, we considered that Smc01640 codes for BcoA/B,...”
  • “...0.24 0.01 1.8 104 2.0 103 Enzyme BcoA/B (Smc01640) BKACE (Smc01637) 0.05 0.004 kcat/Km (s1 * M1)a 2.3 104 2.6 105 5.6 105 17 aValues correspond to the averages...”
• 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
  • “...Open reading frames are as follows: Smc01637, unknown function; Smc01638, hydroxyacyl-CoA dehydrogenase; Smc01639, acyl-CoA dehydrogenase; Smc01640, acyl-CoA...”
• The Sinorhizobium meliloti fur gene regulates, with dependence on Mn(II), transcription of the sitABCD operon, encoding a metal-type transporter
  Chao, Journal of bacteriology 2004
  • “...which have been annotated as hypothetical proteins (smc01637, sma1413, smc04431, smb20335, smc01701, smb21403, and smb20532). An updated annotation of these...”
  • “...smc02416 smc02025 smc01821 smc01701 smc01666 (mdeA) smc01664 smc01637 smc01124 (glnD) smb21403 smb20532 smb20335 sma2137 sma1413 sma1016 sma0875 (nolG) 2.38()...”

Pf6N2E2_4692 dehydrocarnitine cleavage enzyme (EC 2.3.1.-) from Pseudomonas fluorescens FW300-N2E2
Aligns to 4:291 / 295 (97.6%), covers 99.6% of PF05853, 331.4 bits

• mutant phenotype: Specifically important for: Carnitine Hydrochloride. Similar to CdhC = PA5387

Pden_5071 protein of unknown function DUF849 from Paracoccus denitrificans PD1222
Aligns to 4:292 / 295 (98.0%), covers 99.6% of PF05853, 329.3 bits

• Genome-Wide Discovery of Putative sRNAs in Paracoccus denitrificans Expressed under Nitrous Oxide Emitting Conditions
  Gaimster, Frontiers in microbiology 2016
  • “...+ 377 274 335 Pden_3981 hypothetical protein Intergenic 134 759993 760077 84 13968 17250 5830 Pden_5071 hypothetical protein Antisense 146 1387901 1387989 88 + 363 652 82 Pden_4677 hydroxylase Intergenic 36 726444 726596 152 + 4807 8771 472 Pden_5127 Fis family transcriptional regulator Intergenic 60 1384880...”

cdhC / Q9HTH7 3-dehydrocarnitine cleavage enzyme from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
PA5387 hypothetical protein from Pseudomonas aeruginosa PAO1
Aligns to 4:291 / 294 (98.0%), covers 99.6% of PF05853, 329.2 bits

• Identification of genes required for Pseudomonas aeruginosa carnitine catabolism
  Wargo, Microbiology (Reading, England) 2009
  • “...et al. , 2003 ). PAO1 mutants with transposon insertions in each of the PA5388, PA5387, PA5386, and PA5385 genes were unable to grow on carnitine ( Fig. 1A and Table S2 ). The measured growth rate for one representative transposon mutant strain from each gene...”
  • “...However, this gene is not sufficient as none of the other transposon insertions in PA5386, PA5387 , or PA5388 were rescued by this plasmid. The rescue of growth of the PA5386 ::Tn strain using pMW95, which contains 6His-tagged PA5386 and untagged PA5385 under control of an...”

PP0303, PP_0303 conserved hypothetical protein from Pseudomonas putida KT2440
Aligns to 4:291 / 294 (98.0%), covers 99.6% of PF05853, 327.2 bits

• UEG Week 2023 Poster Presentations
  , United European gastroenterology journal 2023
• Nitrogen Metabolism in Pseudomonas putida: Functional Analysis Using Random Barcode Transposon Sequencing
  Schmidt, Applied and environmental microbiology 2022 (secret)

3no5E / Q471D6 Crystal structure of a pfam duf849 domain containing protein (reut_a1631) from ralstonia eutropha jmp134 at 1.90 a resolution
Aligns to 5:274 / 275 (98.2%), covers 100.0% of PF05853, 319.3 bits

• Ligand: zinc ion (3no5E)

A9762_19845 3-keto-5-aminohexanoate cleavage protein from Pandoraea sp. ISTKB
Aligns to 3:289 / 295 (97.3%), covers 99.3% of PF05853, 311.7 bits

• Genomic and proteomic analysis of lignin degrading and polyhydroxyalkanoate accumulating β-proteobacterium Pandoraea sp. ISTKB
  Kumar, Biotechnology for biofuels 2018
  • “...1 3.1 41.287 0.00183 A0A1E3LF93 A9762_23590 Ligand-gated channel protein 24.4315 2 3.4 81.344 8.95E05 A0A1E3LHJ6 A9762_19845 NADPH:quinone reductase 23.3346 1 3.1 31.317 0.00029 A0A1E3LIQ8 A9762_17970 Glycolate oxidase subunit GlcE 24.8966 2 7.3 40.542 3.71E10 A0A1E3LEZ8 A9762_23215 2-Hydroxyhepta-2,4-diene-1,7-dioate isomerase 24.1273 2 14.8 27.8 1.39E06 Relevant protein expressed...”

3chvA / Q6SJB6 Crystal structure of a prokaryotic domain of unknown function (duf849) member (spoa0042) from silicibacter pomeroyi dss-3 at 1.45 a resolution
Aligns to 4:273 / 279 (96.8%), covers 100.0% of PF05853, 311.5 bits

• Ligand: zinc ion (3chvA)

3fa5A / A1B7S1 Crystal structure of a duf849 family protein (pden_3495) from paracoccus denitrificans pd1222 at 1.90 a resolution
Aligns to 3:273 / 276 (98.2%), covers 100.0% of PF05853, 306.8 bits

• Ligand: magnesium ion (3fa5A)

Rv1718 hypothetical protein from Mycobacterium tuberculosis H37Rv
Aligns to 2:268 / 272 (98.2%), covers 99.6% of PF05853, 304.8 bits

• Single cell analysis of M. tuberculosis phenotype and macrophage lineages in the infected lung
  Pisu, The Journal of experimental medicine 2021
  • “...Table S22 ). hspx ::GFP high bacteria up-regulate genes associated with phenotypic drug tolerance ( Rv1718 , Rv1672c , Eis , Mce3R , Rv0880 , Rv2661c , EmbR , Rv3630 , Stp , Rv1847 , Rv0194 , and Rv2989 ; Fig. 4 b ); 34 (70%)...”
• From Corynebacterium glutamicum to Mycobacterium tuberculosis--towards transfers of gene regulatory networks and integrated data analyses with MycoRegNet
  Krawczyk, Nucleic acids research 2009
  • “...168 CGTGA CGCCCC TCACG Rv1714 405 GGTGA CGGCGG CCACA Rv1714 f Rv1715 f Rv1716 Rv1717 Rv1718 Rv2485c c lipQ 91 TGTGA TCCTCG ACACA Rv2486 echA14 287 TGTGT CGAGGA TCACA Rv2524c a,f fas 259 CGTTA CCCACG ACACG Rv2930 c fadD26 498 TGTTA ATCTCG TCACA Rv2930 Rv2931 Rv2932...”
• Comprehensive identification of conditionally essential genes in mycobacteria
  Sassetti, Proceedings of the National Academy of Sciences of the United States of America 2001
  • “...glnE amiB2 thiC gmhA fadB Rv0235c Rv0875c Rv1682 Rv1718 Rv2604c Rv2757c Rv3129 Rv3168 Rv3727 Rich medium Minimal medium Ratio (RichMinimal) Gene function or...”

A4U99_00635 3-keto-5-aminohexanoate cleavage protein from Flavonifractor plautii
Aligns to 5:277 / 287 (95.1%), covers 100.0% of PF05853, 298.3 bits

• 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
  • “...plautii YL31 4- Aminobutyrate A4U99_00500 (ANU39622) 4-hydroxybutyrate CoA-transferase (Cat2, AbfT ACH1) [ 50 ] Lysine A4U99_00635 (ANU39646) 3-keto-5-aminohexanoate cleavage protein (Kce) [ 29 ] Pyruvate A4U99_17605 (ANU42771) A4U99_15055 (ANU42306) pyruvate:ferredoxin (flavodoxin) oxidoreductase (Por, nifJ) enoyl-CoA hydratase (Crt) [ 64 ] C. difficile 630 4- Aminobutyrate CD630_23390...”

SLG_24960 3-keto-5-aminohexanoate cleavage protein from Sphingobium sp. SYK-6
Aligns to 3:290 / 292 (98.6%), covers 100.0% of PF05853, 293.5 bits

• Discovery of novel enzyme genes involved in the conversion of an arylglycerol-β-aryl ether metabolite and their use in generating a metabolic pathway for lignin valorization
  Higuchi, Metabolic engineering 2019 (PubMed)
  • “...not been investigated. In the present study, we isolated SLG_24960 (vceA), which encodes an enzyme that converts VAA into a coenzyme A (CoA) derivative of...”

MMSR116_RS29585 3-keto-5-aminohexanoate cleavage protein from Methylobacterium mesophilicum SR1.6/6
Aligns to 9:279 / 280 (96.8%), covers 99.6% of PF05853, 292.6 bits

• Transcriptome and Secretome Analyses of Endophyte Methylobacterium mesophilicum and Pathogen Xylella fastidiosa Interacting Show Nutrient Competition
  Dourado, Microorganisms 2023
  • “...(MMSR116_RS24210); besides other amino acids related genes: a hypothetical protein (MMSR116_RS21385), a 3-keto-5-aminohexanoate cleavage protein (MMSR116_RS29585), an aspartate ammonia-lyase (MMSR116_RS09695), an aspartate-semialdehyde dehydrogenase (MMSR116_RS07215), a D-amino acid dehydrogenase (MMSR116_RS01745) and a methylmalonate-semialdehyde dehydrogenase (CoA acylating) (MMSR116_RS25555). Purine and pyrimidine metabolism genes were also down-regulated: xanthine dehydrogenase...”

Swit_4921 3-keto-5-aminohexanoate cleavage enzyme from Sphingomonas wittichii RW1
Aligns to 5:292 / 296 (97.3%), covers 100.0% of PF05853, 273.0 bits

• Proteomic profiling of the dioxin-degrading bacterium Sphingomonas wittichii RW1
  Colquhoun, Journal of biomedicine & biotechnology 2012
  • “...0.3 927 148555704 Swit_2794 Opacity protein and related surface antigen-like protein 1.09 0.82 648 148550878 Swit_4921 3-Keto-5-aminohexanoate cleavage enzyme 1.15 0.45 177 148555643 Swit_2731 Aconitate hydratase 1 1.23 0.44 479 148550877 Swit_4920 FAD-dependent pyridine nucleotide-disulphide oxidoreductase 1.57 0.5 937 148550856 Swit_4897 Dioxin dioxygenase, alpha subunit 1.59...”

YP_001638730 protein of unknown function DUF849 from Methylobacterium extorquens PA1
Aligns to 18:285 / 285 (94.0%), covers 99.3% of PF05853, 216.5 bits

• Evolution of mitochondria reconstructed from the energy metabolism of living bacteria
  Degli, PloS one 2014
  • “...extorquens PA1 encodes a protein that is partially similar to bacterial cytochrome b 5 (accession: YP_001638730), which is present only in Rhodopseudomonas palustris among -proteobacteria ( Fig. 2B and data not shown). Consequently, all three functional domains of eukaryotic assimilatory reductases have homologous proteins in extant...”

BMAA2044 hypothetical protein from Burkholderia mallei ATCC 23344
Aligns to 15:319 / 351 (86.9%), covers 99.6% of PF05853, 214.3 bits

• Genome sequence alterations detected upon passage of Burkholderia mallei ATCC 23344 in culture and in mammalian hosts
  Romero, BMC genomics 2006
  • “...BMAA0618 hypothetical protein 1.49 BMAA0810 YadA-like C-terminal region protein 1.44 BMA2461 C4-dicarboxylate transport protein 1.43 BMAA2044 conserved hypothetical protein 1.42 BMA3164 hypothetical protein 1.42 BMA0632 conserved hypothetical protein 1.42 BMAA1384 hypothetical protein 1.41 BMAA1999 hypothetical protein 1.41 BMAA0682 hypothetical protein 1.39 BMA2875 hypothetical protein 1.38 BMAA1865...”

5zmuD / F1LJ99 Crystal structure of a cis-epoxysuccinate hydrolase producing d(-)- tartaric acids (see paper)
Aligns to 3:287 / 287 (99.3%), covers 100.0% of PF05853, 210.0 bits

• Ligand: zinc ion (5zmuD)

Mb1746 CONSERVED HYPOTHETICAL PROTEIN from Mycobacterium bovis AF2122/97
Aligns to 2:202 / 207 (97.1%), covers 72.6% of PF05853, 207.1 bits

• The open pan-genome architecture and virulence landscape of Mycobacterium bovis
  Reis, Microbial genomics 2021
  • “...Mb1744 w/o CC Portugal 2012 Wild boar E Type II [ 65 ] Newly sequenced Mb1746 Eu2 Portugal 2012 Red deer B Type I [ 65 ] Newly sequenced Mb1758 Eu2 Portugal 2012 Cattle A Type II [ 65 ] Newly sequenced Mb1769 Eu2 Portugal 2012...”
• Genome-wide estimation of recombination, mutation and positive selection enlightens diversification drivers of Mycobacterium bovis
  Reis, Scientific reports 2021
  • “...2011 Cattle 40 Newly sequenced Mb1744 w/o CC Portugal 2012 Wild boar 40 Newly sequenced Mb1746 Eu2 Portugal 2012 Red deer 40 Newly sequenced Mb1758 Eu2 Portugal 2012 Cattle 40 Newly sequenced Mb1769 Eu2 Portugal 2012 Wild boar 40 Newly sequenced Mb1785 Eu2 Portugal 2012 Red...”
• Microsatellite polymorphism across the M. tuberculosis and M. bovis genomes: implications on genome evolution and plasticity
  Sreenu, BMC genomics 2006
  • “...(265) 2 nd part is prematurely terminated C6 5 Hypothetical *Rv1718 (272) MT1757 (386) # Mb1746 (207) Mb1747 (pt) G7 8 GlpK glycerol kinase *Rv3696c (517) MT3798 (517) Mb3721c (pt) Mb3722c (251) C2 3 sigM *Rv3911 (222) MT4030 (196) Mb3941 (196), Mb3942(pt) IV) Mutation leading to...”

DDF84_027575 3-keto-5-aminohexanoate cleavage protein from Cupriavidus metallidurans
Aligns to 7:176 / 181 (93.9%), covers 60.9% of PF05853, 165.9 bits

• Comparative Insights Into the Complete Genome Sequence of Highly Metal Resistant Cupriavidus metallidurans Strain BS1 Isolated From a Gold-Copper Mine
  Mazhar, Frontiers in microbiology 2020
  • “...DDF84_027595 RMET_RS30405 (hyp) = DDF84_027910; transfered to chromid in BS1 at CMGI-E site in CH34; DDF84_027575 DDF84_027535 TBSSR; tyrosine-base site specific recombinase. TABLE 5 Prophages observed in C. metallidurans BS1, NA1, NA4, H1130, and Ni-2. Strain replicon Region length (Kb) Completeness a Score b Total proteins...”

4nnaA / C5AJX5 Apo structure of obca (see paper)
Aligns to 154:366 / 498 (42.8%), covers 60.6% of PF05853, 114.5 bits

• Ligand: magnesium ion (4nnaA)

bglu_2g18790 hypothetical protein from Burkholderia glumae BGR1
Aligns to 181:387 / 540 (38.3%), covers 60.6% of PF05853, 114.0 bits

• A membrane protein of the rice pathogen Burkholderia glumae required for oxalic acid secretion and quorum sensing
  Iqbal, Molecular plant pathology 2023
  • “...additional data file. Figure S6. Deletion of the Burkholderia glumae 336gr1 obcAB operon (bglu_2g18780 and bglu_2g18790). (a) The position of the obcAB operon in the B. glumae 336gr1 genome and deletion of the obcAB operon from the genome. The obcAB operon is located between bglu_2g18770 (LysR...”
• Essential roles of Lon protease in the morpho-physiological traits of the rice pathogen Burkholderia glumae
  Goo, PloS one 2021
  • “...into B . glumae BLONN through conjugation using pRK2013 as a helper plasmid. The obcA (bglu_2g18790) gene was deleted via insertion of the trimethoprim resistance gene Kpn I- Xho I and marker exchange as described previously [ 21 ]. A 2.716-kb DNA fragment including the obcA...”

5ikyA Apo structure of obc1, a bifunctional enzyme for quorum sensing- dependent oxalogenesis (see paper)
Aligns to 181:386 / 1048 (19.7%), covers 58.8% of PF05853, 92.2 bits

• Ligand: magnesium ion (5ikyA)

BTH_II1071 Prokaryotic protein of unknown function (DUF849) family from Burkholderia thailandensis E264
Q2T6D1 3-keto-5-aminohexanoate cleavage protein from Burkholderia thailandensis (strain ATCC 700388 / DSM 13276 / CCUG 48851 / CIP 106301 / E264)
Aligns to 126:331 / 1065 (19.3%), covers 58.8% of PF05853, 92.1 bits

• Proteomic Profiling of Burkholderia thailandensis During Host Infection Using Bio-Orthogonal Noncanonical Amino Acid Tagging (BONCAT)
  Franco, Frontiers in cellular and infection microbiology 2018
  • “...7.687991 7.22E-07 Q2T5L4 BTH_II1339 Uncharacterized protein 6.25127 0.028059 Q2T5P6 BTH_II1307 Uncharacterized protein 6.068985 0.003034 Q2T6D1 BTH_II1071 Uncharacterized protein 6.057949 1.23E-11 Q2T740 BTH_II0812 Serine carboxypeptidase family protein 5.971823 0.04308 Q2STH1 BTH_I3286 Membrane protein, putative 5.925939 0.004677 Q2SX64 BTH_I1956 Non-ribosomal peptide synthase domain protein 5.818015 0.006848 Q2T4X6 BTH_II1578...”
  • “...For example, the protein showing the highest expression level in host-associated bacteria (Q2T6D1, encoded by BTH_II1071) has been annotated as belonging to a Domain of Unknown Function protein family DUF849 generally associated with beta-keto acid cleavage enzymes (Bastard et al., 2014 ); however, recent structural and...”
• Global analysis of the Burkholderia thailandensis quorum sensing-controlled regulon
  Majerczyk, Journal of bacteriology 2014
  • “...of California, Berkeley BTH_I1957 BTH_I1960 BTH_I2813 BTH_II0204 BTH_II0627 BTH_II1071 b Majerczyk et al. light and dark green for strand orientation. The ring...”
• Proteomic Profiling of Burkholderia thailandensis During Host Infection Using Bio-Orthogonal Noncanonical Amino Acid Tagging (BONCAT)
  Franco, Frontiers in cellular and infection microbiology 2018
  • “...methyltransferase 7.687991 7.22E-07 Q2T5L4 BTH_II1339 Uncharacterized protein 6.25127 0.028059 Q2T5P6 BTH_II1307 Uncharacterized protein 6.068985 0.003034 Q2T6D1 BTH_II1071 Uncharacterized protein 6.057949 1.23E-11 Q2T740 BTH_II0812 Serine carboxypeptidase family protein 5.971823 0.04308 Q2STH1 BTH_I3286 Membrane protein, putative 5.925939 0.004677 Q2SX64 BTH_I1956 Non-ribosomal peptide synthase domain protein 5.818015 0.006848 Q2T4X6...”
  • “...some intriguing insights. For example, the protein showing the highest expression level in host-associated bacteria (Q2T6D1, encoded by BTH_II1071) has been annotated as belonging to a Domain of Unknown Function protein family DUF849 generally associated with beta-keto acid cleavage enzymes (Bastard et al., 2014 ); however,...”

DR0052 hypothetical protein from Deinococcus radiodurans R1
Aligns to 3:251 / 251 (99.2%), covers 95.3% of PF05853, 90.8 bits

• Transcriptome dynamics of Deinococcus radiodurans recovering from ionizing radiation
  Liu, Proceedings of the National Academy of Sciences of the United States of America 2003
  • “...assigned to them. Several striking examples include DR0003, DR0052, DR0140, DR0665, DR1143, and DR2337 (Table 4). However, some of these genes might not encode...”

BMAA0912 hypothetical protein from Burkholderia mallei ATCC 23344
Aligns to 132:338 / 1071 (19.3%), covers 58.8% of PF05853, 89.0 bits

• Outer membrane proteome of Burkholderia pseudomallei and Burkholderia mallei from diverse growth conditions
  Schell, Journal of proteome research 2011
  • “...OmpW-family protein 3407 5.88 yes 0.37 BPSS0879 d BMAA1353 porin 3203 4.63 yes 11.0 BPSS1356 BMAA0912 hypothetical protein 3246 3.69 yes 1.10 BPSL2522 d BMA0436 OmpA-family protein 2885 3.53 yes 7.63 BPSL2003 BMA0904 hypothetical protein 0393 1.78 yes 1.05 BPSS1679 d BMAA1698 porin 3203 1.67 yes...”

BPSS1356 hypothetical protein from Burkholderia pseudomallei K96243
Aligns to 186:391 / 1125 (18.3%), covers 58.8% of PF05853, 88.8 bits

• Correction: The Multiple Roles of Hypothetical Gene BPSS1356 in Burkholderia pseudomallei
  , PloS one 2014
  • “...Science San Francisco, USA 4110013 PONE-D-14-29680 10.1371/journal.pone.0103394 Correction Correction: The Multiple Roles of Hypothetical Gene BPSS1356 in Burkholderia pseudomallei The PLOS ONE Staff 2014 24 7 2014 24 7 2014 9 7 e103394 2014 The PLOS ONE Staff 2014 The PLOS ONE Staff This is an...”
  • “...provided the original author and source are properly credited. The Multiple Roles of Hypothetical Gene BPSS1356 in Burkholderia pseudomallei Figure 2 became corrupted during the production process. The publisher apologizes for the error. Please see the correct Figure 2 here. 10.1371/journal.pone.0099218.g002 Figure 2: PCR screening result...”
• The multiple roles of hypothetical gene BPSS1356 in Burkholderia pseudomallei
  Yam, PloS one 2014
  • “...Gram Negative Bacteria Medical Microbiology Microbial Pathogens Bacterial Pathogens The Multiple Roles of Hypothetical Gene BPSS1356 in Burkholderia pseudomallei The Roles of BPSS1356 Yam Hokchai 1 Abdul Rahim Ainihayati 1 2 Mohamad Suriani 3 Mahadi Nor Muhammad 4 Abdul Manaf Uyub 1 Shu-Chien Alexander Chong 1...”
  • “...assay using histidine-tagged B. pseudomallei RpoC N-terminal region as bait showed that a hypothetical protein BPSS1356 was one of the proteins bound. This hypothetical protein is conserved in all B. pseudomallei strains and present only in the Burkholderia genus. A BPSS1356 deletion mutant was generated to...”
• Validation of a Burkholderia pseudomallei hypothetical protein and determination of its translational start codon using chromosomal integration of His-Tag coding sequence
  Yam, The protein journal 2012 (PubMed)
  • “...validate the presence of a hypothetical gene product of BPSS1356 from Burkholderia pseudomallei as well as its start codon. It was done by integration of a...”
  • “...chromatography. The genuine start codon of BPSS1356 was then determined by protein N-terminal sequencing. Keywords Burkholderia pseudomallei Hypothetical...”
• Outer membrane proteome of Burkholderia pseudomallei and Burkholderia mallei from diverse growth conditions
  Schell, Journal of proteome research 2011
  • “...BPSL3105 the tube-forming component (Hcp) of a T6SS. Two of the most abundant always-present OMPs, BPSS1356 and BPSL2003, are hypothetical proteins. The former is a 120-kDa protein with orthologs only in the closely related species Burkholderia thailandensis and Burkholderia oklahomensis . The latter is a 12-kDa...”
  • “...BMA2010 OmpW-family protein 3407 5.88 yes 0.37 BPSS0879 d BMAA1353 porin 3203 4.63 yes 11.0 BPSS1356 BMAA0912 hypothetical protein 3246 3.69 yes 1.10 BPSL2522 d BMA0436 OmpA-family protein 2885 3.53 yes 7.63 BPSL2003 BMA0904 hypothetical protein 0393 1.78 yes 1.05 BPSS1679 d BMAA1698 porin 3203 1.67...”
• Contribution of gene loss to the pathogenic evolution of Burkholderia pseudomallei and Burkholderia mallei
  Moore, Infection and immunity 2004
  • “...0.655842301 0.637379273 BPSS0156 BPSL1961 BPSS0265 BPSS1356 BPSS0526 BPSS0154 BPSL2028 BPSL2177 BPSL3021 BPSL2024 BPSS0308 BPSS1637 BPSS0262 Isocitrate...”

PA0812 hypothetical protein from Pseudomonas aeruginosa PAO1
Aligns to 39:173 / 431 (31.3%), covers 26.3% of PF05853, 36.1 bits

• Full Transcriptomic Response of Pseudomonas aeruginosa to an Inulin-Derived Fructooligosaccharide
  Rubio-Gómez, Frontiers in microbiology 2020
  • “...L -alanine amidase 2.7 0.000 PA0809 Transporter activity 1.7 0.000 PA0811 Transmembrane transport 1.8 0.000 PA0812 Uncharacterized protein 1.7 0.000 PA0908 alpB Response to antibiotic 2.0 0.000 PA0910 alpD Response to DNA damage stimulus 1.7 0.000 PA0911 alpE Response to DNA damage stimulus 1.4 0.000 PA0912...”
• Screening for quorum-sensing inhibitors (QSI) by use of a novel genetic system, the QSI selector
  Rasmussen, Journal of bacteriology 2005
  • “...PA0534 PA0567 PA0699 PA0755 PA0797 PA0798 PA0800 PA0803 PA0812 PA0828 PA0846 PA0852 PA0873 PA0887 PA0990 PA0996 PA1111 PA1190 PA1202 PA1216 PA1242 PA1249 PA1255...”

Or search for genetic data about PF05853 in the Fitness Browser