PaperBLAST
PaperBLAST Hits for tr|Q9I1G0|Q9I1G0_PSEAE Beta-lactamase-related domain-containing protein OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=PA2315 PE=4 SV=1 (391 a.a., MSSFEREPGC...)
Show query sequence
>tr|Q9I1G0|Q9I1G0_PSEAE Beta-lactamase-related domain-containing protein OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=PA2315 PE=4 SV=1
MSSFEREPGCGLAENVDQVIEAAFADQRLVGAVVLVAHRGQWLYRRAAGLADREAGRIMG
EDSLFRLASVSKPIVSVAALSLVDEGRLALDEPIADWLPAFRPRLADGREARITPRQLLS
HSAGLGYRFLEADADGPYARAGISDGMDLPGFDLAENLRRLASVPLLYEPGRAWGYSLAT
DVLGALVERVDGRPLAEALRQRVGIPAGMRDSGFLCADAQRLAAVYVSDRPRPRRMAERE
TVTPFEDCVGIRFEPRRAFEPSAYASGGAGMIGSAGDVLRLLEVLRQGGAPLLTPGLVEE
MGRDQLPGLELPANPGFGFGLGFSVLRDPAIAQSPESPGTWRWGGAYGHSWFVDRARELS
VVALTNTLFEGMSGRFVNDLRDAVYRSAEVR
Running BLASTp...
Found 250 similar proteins in the literature:
PA2315 hypothetical protein from Pseudomonas aeruginosa PAO1
Q9I1G0 Beta-lactamase-related domain-containing protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
100% identity, 100% coverage
- Evolution of lasR mutants in polymorphic Pseudomonas aeruginosa populations facilitates chronic infection of the lung
Zhao, Nature communications 2023 - “...PA1226, PA1362 gatC lasR, pscR, pilS tle3, mucA, ptrB, cupB5, yheU, yqaA, PA0190, PA1153, PA1879, PA2315, PA2841, PA2875, PA3470, PA3884 W4a a phzF1, algO, PA0946 PA0946 W6b a phzF1, phzE, glnA W3a 3280 genes opdH, phlE, ymdC gatC pscR yheU, yqaA, PA0190, PA1879, PA3470, PA3884 W5b...”
- “...PA1038, ymdC gatC, bkdR pscR, algR tle3, cupB3, rocS1, vfr, yheU, yqaAPA0126, PA0190, PA1153, PA1879, PA2315, PA2841, PA3884 a The genome sequences of the isolates belonging to Subgroup 1 in Fig. 2b were compared to that of W1c. b The genome sequences of the isolates belonging...”
- Transcriptome Analysis Reveals the Resistance Mechanism of Pseudomonas aeruginosa to Tachyplesin I
Hong, Infection and drug resistance 2020 - “...1.475058 Up waaC Lipopolysaccharide heptosyltransferase 8.06E-05 1.023263 Up lasA Protease LasA 2.62E-07 1.73674 Down beta-lactamase PA2315 Beta-lactamase 5.16E-05 1.92727 Up PA5514 Beta-lactamase 1.41E-06 1.41767 down Biofilm formation chpC Chemosensory pili system protein ChpC/chemotaxis protein 0.004917388 1.704317455 Up Table 4 The Contents of OMPs from Different P....”
- “...study, such as upregulated genes encoding protease (PA3913) and encoding peptidase (PA2658). The upregulated gene PA2315 and downregulated gene PA5514 both encoded beta-lactamase. The downregulated gene PA2764 (log2FC=16.39) encoded alpha/beta hydrolase superfamily. In the DEGs, some genes that encoded the peptidase S9, S49, and M23 were...”
- Proteome-wide identification of druggable targets and inhibitors for multidrug-resistant <i>Pseudomonas aeruginosa</i> using an integrative subtractive proteomics and virtual screening approach
Vemula, Heliyon 2025 - “...1887 Q9I231 2969 Q9HWI9 4051 Q9I1F9 5133 Q9I785 806 Q9I0A4 1888 Q9I237 2970 Q9HWJ1 4052 Q9I1G0 5134 Q9I786 807 Q9I0D9 1889 Q9I238 2971 Q9HWJ2 4053 Q9I1G1 5135 Q9I789 808 Q9I0E0 1890 Q9I245 2972 Q9HWJ4 4054 Q9I1G2 5136 Q9I790 809 Q9I0F4 1891 Q9I262 2973 Q9HWJ5 4055 Q9I1G3...”
PAM18_2725 serine hydrolase domain-containing protein from Pseudomonas aeruginosa M18
97% identity, 100% coverage
- Genomic analysis and temperature-dependent transcriptome profiles of the rhizosphere originating strain Pseudomonas aeruginosa M18
Wu, BMC genomics 2011 - “...a -lactamase gene ampC (PAM18_0829) and other eight putative -lactamase genes (i.e., PAM18_0058, PAM18_1371, PAM18_2047, PAM18_2725, PAM18_3247, PAM18_4437, PAM18_5635, and PAM18_5664), which are responsible for encoding enzymes resistant to -lactam antibiotics [ 56 , 57 ]. Furthermore, the M18 genome contains several gene clusters encoding proteins...”
Smal_0402 beta-lactamase from Stenotrophomonas maltophilia R551-3
57% identity, 93% coverage
BurJV3_0424 serine hydrolase domain-containing protein from Stenotrophomonas maltophilia JV3
56% identity, 93% coverage
ESTB_BURGA / Q9KX40 Esterase EstB; EC 3.1.1.- from Burkholderia gladioli (Pseudomonas marginata) (Phytomonas marginata) (see paper)
estB / SP|Q9KX40 esterase EstB; EC 3.1.1.- from Burkholderia gladioli (see 5 papers)
56% identity, 96% coverage
- function: Acts on short-chain (C4-C6) fatty acid esters and triglycerides, including tertiary alcohol esters. Activity on p- nitrophenyl esters is generally higher than on o-nitrophenyl esters. Lacks beta-lactamase activity; it hydrolyzes the ester bond of cephalosporin substrates but there is no opening of the beta-lactam ring observed
- Thermophilic Carboxylesterases from Hydrothermal Vents of the Volcanic Island of Ischia Active on Synthetic and Biobased Polymers and Mycotoxins
Distaso, Applied and environmental microbiology 2023 - “...Actinobacteria Amycolatopsis lactamdurans ( Q06317 ; 36% identity) and esterase EstB from Burkholderia gladioli ( Q9KX40 ; 32% identity) ( 41 , 42 ). Domain and multiple sequence alignment confirmed the presence of conserved regions and motifs linked to esterase activity in lipolytic families previously described...”
- Inhibition of the growth of Bacillus subtilis DSM10 by a newly discovered antibacterial protein from the soil metagenome
O'Mahony, Bioengineered 2015 - “...37 Uncharacterized protein Rv1367c/MT1414 Mycobacterium tuberculosis 6e-54 P9WLZ2 /P9WLZ3 34 Esterase EstB Burkholderia gladioli 2e-42 Q9KX40 30 UPF0214 protein YfeW Escherichia coli O157:H7 7e-31 Q8XBJ0 30 UPF0214 protein YfeW Escherichia coli strain K12 2e-30 P77619 29 UPF0214 protein YfeW Salmonella enteritidis PT4 2e-28 B5R4I5 While the...”
- Novel antibacterial proteins from the microbial communities associated with the sponge Cymbastela concentrica and the green alga Ulva australis
Yung, Applied and environmental microbiology 2011 - “...Uncharacterized protein Rv1367c (Q11037) Esterase estB (Q9KX40) UPF0214 protein yfeW precursor (P77619) Putative alpha/beta hydrolase R526 (Q5UQ83) Lipase...”
- “...esterase from Burkholderia gladioli (Swiss-Prot accession no. Q9KX40) and a putative hydrolase from Acanthamoeba polyphaga, respectively (Table 1). Abg1, -2,...”
- Evolution of a family of metazoan active-site-serine enzymes from penicillin-binding proteins: a novel facet of the bacterial legacy
Peitsaro, BMC evolutionary biology 2008 - “...Oceanicaulis alexandrii YP_755834 RefSeq LPBP-B a Sphingopyxis alaskensis YP_618034 RefSeq LPBP-B a -proteobacteria Burkholderia gladioli Q9KX40 Swiss-Prot LPBP-B a Bacillae Bacillus cereus ZP_00239307 RefSeq LPBP-B a Actinobacteria Streptomyces sp. strain R61 P15555 Swiss-Prot [22,23] Salinispora tropica ZP_01429613 RefSeq LPBP-B a NOTE.- a Classified according to the...”
- “...Ochrobactrum anthropii [Swiss-Prot: Q9ZBA9 ] [ 25 ]; and a transesterase from Burkholderia gladioli [Swiss-Prot: Q9KX40 ] [ 26 ]. These three proteins representing different LPBP-B subclasses share an almost identical polypeptide fold consisting of an / region and an all-helical region, with the catalytic site...”
1ci9A / Q9KX40 Dfp-inhibited esterase estb from burkholderia gladioli (see paper)
56% identity, 96% coverage
- Ligand: diisopropyl phosphonate (1ci9A)
RL1606 putative esterase (beta-lactamase family) from Rhizobium leguminosarum bv. viciae 3841
52% identity, 96% coverage
ZMO1650 beta-lactamase from Zymomonas mobilis subsp. mobilis ZM4
45% identity, 96% coverage
- Systematic metabolic engineering of Zymomonas mobilis for β-farnesene production
Xiao, Frontiers in bioengineering and biotechnology 2024 - “...FP8 ZMNP with ZMO1547 replaced by P gap-AaBFS This study FP9 ZMNP with ZMO1547 and ZMO1650 replaced by P gap-AaBFS This study FP10 FP6 containing pEZ39p _ P gap-zwf This study FP11 FP6 containing pEZ39p _ P gap-ppnK This study FP12 FP6 containing pEZ39p _ P...”
- “...to integrate the AaBFS gene into the genome at a chromosomal locus of ZMO1547 and ZMO1650 since their deletions do not affect the growth and ethanol production of Z. mobilis ( Qiu et al., 2020 ; Xiao et al., 2024 ). The genome-editing plasmid was constructed...”
- Paradigm of engineering recalcitrant non-model microorganism with dominant metabolic pathway as a biorefinery chassis
Yan, Nature communications 2024 - “...strain and conducted three rounds of genome editing (Fig. 5b ). First, we replaced the ZMO1650 of ZM4 with 2,3-BDO expression cassette including Bsals driven by inducible promoter P tet and a synthetic operon Aldc-Bdh driven by P gap promoter, resulting in ZMB1, which enabled the...”
- “...flow, consequently enhancing the flux of the D-lactic acid metabolic pathway. Finally, we replaced the ZMO1650 -2,3-BDO expression cassette of ZMB5 with Dldh to obtain ZMB6. Batch fermentation in shaking flasks Recombinant strains were pre-cultured overnight with OD 600nm value of 1.02.0 in RMG5 medium for...”
- Construction and comparison of different vehicles for heterologous gene expression in Zymomonas mobilis
Behrendt, Microbial biotechnology 2024 - “...interference ATCC 31821 Spy dcas9 Banta etal.( 2020 ), Applied and Environmental Microbiology ZMO0038, ZMO1360, ZMO1650 Native CRISPRCas Lactate production native pdc and ldhA of L.mesenteroides Hu etal.( 2023 ), Frontiers in Bioengineering and Biotechnology Literature suggests that so far the replication mechanisms of 11 native...”
- Metabolic engineering of Zymomonas mobilis for co-production of D-lactic acid and ethanol using waste feedstocks of molasses and corncob residue hydrolysate
Hu, Frontiers in bioengineering and biotechnology 2023 - “...by replacing ZMO0038 with LmldhA gene driven by a strong promoter P adhB , replacing ZMO1650 with native pdc gene driven by P tet, and replacing native pdc with another copy of LmldhA driven by P adhB to divert carbon from ethanol to D-lactate. The resultant...”
- “...strain ZM4 (pEZ-ldh). Construction of editing plasmids and mutants The chromosomal locus of ZMO0038 and ZMO1650 were selected as gene integration location since their deletions do not affect the growth of Z. mobilis ( Yang et al., 2016 ; Qiu et al., 2020 ). Here, the...”
- Identification and Characterization of Genes Related to Ampicillin Antibiotic Resistance in Zymomonas mobilis
Geng, Antibiotics (Basel, Switzerland) 2022 - “...resistance using CRISPR/Cas12abased genomeediting technology. Six ampicillinresistant genes ( ZMO0103 , ZMO0893 , ZMO1094 , ZMO1650 , ZMO1866 , and ZMO1967 ) were identified, and five mutant strains ZM40103, ZM40893, ZM41094, ZM41650, and ZM41866 were constructed. Additionally, a fourgene mutant ZM4ARs was constructed by knocking out...”
- “...them, six genes were annotated as lactamaseencoding genes ( ZMO0103 , ZMO0893 , ZMO1094 , ZMO1650 , ZMO1866 , ZMO1967 ), two candidate genes in list 1 ( ZMO0103 , ZMO1967 ), and five genes in list 2 ( ZMO0103 , ZMO0893 , ZMO1650 , ZMO1866...”
AYR46_23250 serine hydrolase domain-containing protein from Sphingobium yanoikuyae
51% identity, 96% coverage
A0A0C5DFF8 carboxylesterase (EC 3.1.1.1) from Sphingobium sp. SM42 (see paper)
50% identity, 97% coverage
OFBG_01018 serine hydrolase domain-containing protein from Oxalobacter formigenes OXCC13
44% identity, 96% coverage
- Proteome Dynamics of the Specialist Oxalate Degrader Oxalobacter formigenes
Ellis, Journal of proteomics & bioinformatics 2016 - “...activity, an Abi family protein (OFBG_00600), which is involved in resisting bacteriophage infection, an esterase (OFBG_01018) with predicted beta-lactamase activity, and a transcriptional regulator of the TetR family (OFBG_00136), which are involved in the control of expression of multidrug resistance proteins. In Gram-negative organisms, enzymes belonging...”
YP_589716 beta-lactamase from Acidobacteria bacterium Ellin345
34% identity, 83% coverage
YP_002501216 beta-lactamase from Methylobacterium nodulans ORS 2060
37% identity, 84% coverage
4ivkA / K4HQE7 Crystal structure of a fammily viii carboxylesterase in a complex with cephalothin. (see paper)
32% identity, 88% coverage
- Ligand: cephalothin group (4ivkA)
YP_001682441 beta-lactamase from Caulobacter sp. K31
32% identity, 88% coverage
CCNA_03294 beta-lactamase family protein from Caulobacter crescentus NA1000
32% identity, 77% coverage
- Genome-wide profiling of Hfq-bound RNAs reveals the iron-responsive small RNA RusT in Caulobacter crescentus
Vogt, mBio 2024 - “..., CCNA_03181 , CCNA_03774 , and CCNA_02047 ( glnA )], a beta-lactamase family protein ( CCNA_03294 ) as well as several hypothetical proteins ( CCNA_01043 , CCNA_02741 , CCNA_02342 , and CCNA_02379 ). When we analyzed the list of potential RusT targets we realized that a...”
- “...E04 No tss CCNA_02342 Hypothetical protein with pentapeptide repeats 2.1 6.4 E04 35 to +60 CCNA_03294 Beta-lactamase family protein 2.0 3.3 E03 96 to +60 CCNA_02379 Hypothetical protein 2.0 7.7 E04 71 to +60 CCNA_03360 Tagatose-1,6-bisphosphate aldolase 2.0 0.02 282 to +60 CCNA_01820 GTP-binding protein 2.1...”
CC3190 conserved hypothetical protein from Caulobacter crescentus CB15
32% identity, 76% coverage
- Transcriptional profiling of Caulobacter crescentus during growth on complex and minimal media
Hottes, Journal of bacteriology 2004 - “...CC2585,d CC2586,c CC2626, CC2645, CC2805,c CC2806,a,d CC2807, CC3055, CC3190, CC3335 a Relative mRNA ratio M2X/M2G M2X/PYE 3.46 4.99 11.6 1.56 3.66 5.21 11.9...”
7pp8A / A0A2K8JQ66 Structure of ester-hydrolase eh7 from metagenome of marine sediments at milazzo harbor (sicily, italy) complexed with a derivative of methyl 4-nitrophenyl hexylphosphonate (see paper)
33% identity, 89% coverage
- Ligand: methyl hydrogen (r)-hexylphosphonate (7pp8A)
CC_3628 conserved hypothetical protein from Caulobacter crescentus CB15
35% identity, 77% coverage
Y1367_MYCTU / P9WLZ3 Protein Rv1367c from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see paper)
P9WLZ2 Uncharacterized protein MT1414 from Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)
36% identity, 84% coverage
MAB_2833 Probable beta-lactamase from Mycobacterium abscessus ATCC 19977
MAB_2833 serine hydrolase domain-containing protein from Mycobacteroides abscessus ATCC 19977
35% identity, 83% coverage
- Genetic Manipulation of Non-tuberculosis Mycobacteria
Chimukuche, Frontiers in microbiology 2021 - “...vector Apr r katG Rominski et al. (2017) M. abscessus (ATCC19977) Electroporation mmpL4b mbtH MAB_2875 MAB_2833 Suicide vector Km r lacZ galK Gregoire et al. (2017) One strategy to overcome the low transformation efficiency of electroporation is to use mycobacteriophages to deliver DNA. This involves incorporation...”
- Dissecting the antibacterial activity of oxadiazolone-core derivatives against Mycobacterium abscessus
Madani, PloS one 2020 - “...Rv2913c); the probable carboxylesterase MAB_1919 ( i . e ., Rv2223c); and the putative -lactamase MAB_2833 ( i . e ., Rv1367c) possibly involved in cell wall biosynthesis. Three members of the lipase family Lip [ 42 ], LipH (MAB_2039), LipN (MAB_3270c) and LipI (MAB_2814); three...”
- galK-based suicide vector mediated allelic exchange in Mycobacterium abscessus
Gregoire, Microbiology (Reading, England) 2017 - “... -lactamase gene MAB_2875 and a putative -lactamase gene, MAB_2833. We also show that a novel allele of the E. coli aacC4 gene, conferring apramycin...”
NP_948152 Beta-lactamase from Rhodopseudomonas palustris CGA009
31% identity, 85% coverage
blr6840 serine hydrolase domain-containing protein from Bradyrhizobium diazoefficiens USDA 110
31% identity, 89% coverage
Mb1402c CONSERVED HYPOTHETICAL PROTEIN from Mycobacterium bovis AF2122/97
35% identity, 85% coverage
- Roles of Lipolytic enzymes in Mycobacterium tuberculosis pathogenesis
Lin, Frontiers in microbiology 2024 - “...penicillin binding proteins, e.g., penicillin-binding protein 4 from Bacillus subtili ; Similar to M. bovis Mb1402c No information available 2.3 Phospholipases The phospholipase A1 (PLA1), A2 (PLA2), C (PLC), and D (PLD) in the Mtb H37Rv phospholipase family hydrolyze phospholipids at various locations ( Raynaud et...”
Rv1367c hypothetical protein from Mycobacterium tuberculosis H37Rv
35% identity, 85% coverage
- <i>Mycobacterium abscessus</i> Virulence Factors: An Overview of Un-Explored Therapeutic Options
Cocorullo, International journal of molecular sciences 2025 - “...against Mab , too. Experimental data suggests that CyCs inhibit two putative -lactamases Rv1730c and Rv1367c, the serine hydrolase Rv0554, five members of the lipase family Lip of which Rv1399c and Rv3203 have been characterized as LipH and LipV respectively, six enzymes with lipolytic activity such...”
- Roles of Lipolytic enzymes in Mycobacterium tuberculosis pathogenesis
Lin, Frontiers in microbiology 2024 - “...would undoubtedly improve comprehension of the Mtb life cycle. The hypothetical lipases/esterases such as Rv2030c, Rv1367c, Rv1922, Rv1063c and Rv3728, summarized in Table 2 and Supplementary Table S2 , are predicted to be important in the life cycle in Mtb according to their subcellular localization and...”
- “...process; Predicted possible vaccine candidate Similarity to M. bovis Mb2055c, Mb2056c Mushtaq et al. (2015) Rv1367c Extracellular -lactamase; Carboxylesterase; Possibly involved in cell wall biosynthesis Some similarity to penicillin binding proteins, e.g., penicillin-binding protein 4 from Bacillus subtili ; Similar to M. bovis Mb1402c No information...”
- Genome-wide screen identifies host loci that modulate Mycobacterium tuberculosis fitness in immunodivergent mice
Meade, G3 (Bethesda, Md.) 2023 - “...169.114 4.90 168.446 169.887 1.80E-03 hp013 Rv1965 yrbE3B 2 170.362 3.50 15.435 180.835 1.43E-02 hp014 Rv1367c Rv1367c 2 173.385 3.77 46.133 176.951 1.85E-02 hp015 Rv1290A Rv1290A 2 181.009 2.96 14.698 181.991 2.36E-02 hp016 Rv3047c Rv3047c 3 41.212 3.92 39.644 51.561 4.49E-02 hp017 Rv0101 nrp 3 57.642...”
- Penicillin Binding Proteins and β-Lactamases of Mycobacterium tuberculosis: Reexamination of the Historical Paradigm
Kumar, mSphere 2022 - “...composite hydrolysis of this -lactam subclass was attributable to this single protein. To our surprise, Rv1367c, Rv1730c, and Rv2864c, which are annotated to exhibit PBP-like function ( 36 ), and are not known to exhibit -lactamase activities, inactivated carbapenems at a rate comparable (14% each) to...”
- “...and faropenem (a penem) were selectively hydrolyzed at higher levels (100nmol) by PonA1, PonA2, BlaC, Rv1367c, Rv1730c, and Rv2864c, whereas, a smaller amount (100nmol) of meropenem was hydrolyzed by the same proteins. Smaller amounts of carbapenems (<70nmol) were hydrolyzed by PbpA, PbpB, DacB, DacB1, and DacB2....”
- Dissecting the antibacterial activity of oxadiazolone-core derivatives against Mycobacterium abscessus
Madani, PloS one 2020 - “...i . e ., Rv2223c); and the putative -lactamase MAB_2833 ( i . e ., Rv1367c) possibly involved in cell wall biosynthesis. Three members of the lipase family Lip [ 42 ], LipH (MAB_2039), LipN (MAB_3270c) and LipI (MAB_2814); three Cutinase-like proteins [ 41 ], Cut2...”
- Cyclipostins and Cyclophostin analogs as promising compounds in the fight against tuberculosis
Nguyen, Scientific reports 2017 - “...LipM Rv2284 46.7 Lipase/esterase IM/R Lipase LipE Rv3775 45.2 Lipase/esterase IM/R 4 hypothetical protein LH57_07490 Rv1367c 43.7 -lactamase CW/CP Lipase/esterase LipN Rv2970c 40.1 Lipase/esterase IM/R 36 Alcohol dehydrogenase AdhB Rv0761c 39.7 Dehydrogenase IM/R 5 Lipase LipH Rv1399c 34.0 Lipase/esterase IM/R 37 Secreted antigen 85-A FbpA Ag85A...”
- “...hydrolases were identified: two putative -lactamases Rv1730c (currently annotated as a possible penicillin-binding protein) and Rv1367c, both possibly involved in cell wall biosynthesis; two amidases AmiC (Rv2888c) and AmiB2 (Rv1263); and BpoC a possible peroxidase (Rv0554) 35 recently proposed as being a functional serine hydrolase 30...”
- Use of whole-genome sequencing to distinguish relapse from reinfection in a completed tuberculosis clinical trial
Witney, BMC medicine 2017 - “...S 114494 nrp 031 S 175753 Rv0149 S 620981 Rv0530 S 1315992 pks4 NS 1540497 Rv1367c CP, non-essential S 2788333 plsB2 033 NS 3618159 Rv3240c, secA1 Protein export, essential 036 S 923816 lysT NS 924229 Rvnt13, pheU tRNA NS 924234 Rvnt13, pheU tRNA S 924263 pheU...”
- Systematic Survey of Serine Hydrolase Activity in Mycobacterium tuberculosis Defines Changes Associated with Persistence
Ortega, Cell chemical biology 2016 - “...hydrolase hydrolase Rv0613c poor prediction Rv0774c esterase hydrolase Rv1062 lipase other Rv1192 hydrolase hydrolase hydrolase Rv1367c -lactamase hydrolase Rv1723 hydrolase -lactamase hydrolase Rv1769 Rv1770 peptidase peptidase Rv1794 other c Rv2061c other Rv2204c other Rv2695 hydrolase hydrolase Rv2715 hydrolase hydrolase hydrolase Rv3311 poor prediction Rv3312c hydrolase hydrolase...”
- More
NP_770666 blr4026 from Bradyrhizobium japonicum USDA 110
34% identity, 84% coverage
7u1bA / Q9A800 Crystal structure of estg in complex with tantalum cluster (see paper)
30% identity, 88% coverage
- Ligand: hexatantalum dodecabromide (7u1bA)
CCNA_01639 beta-lactamase family protein from Caulobacter crescentus NA1000
29% identity, 81% coverage
- EstG is a novel esterase required for cell envelope integrity in Caulobacter
Daitch, Current biology : CB 2023 - “...While exploring the role of EstG, we noticed the gene immediately downstream from estG , CCNA_01639 , is also annotated as a -lactamase family protein and wondered if the two might be functionally related. CCNA_01639 has high sequence identity to EstG (52%), and both are predicted...”
- “...transposon insertion frequency in the presence of CTL ( Figure 1B ). Similarly, deletion of CCNA_01639 did not result in hypersensitivity to ampicillin or cephalexin ( Figure S2C ). Moreover, the double deletion, estG CCNA_01639 , phenocopied the single estG mutant ( Figure S2C ). Since...”
CCNA_01638 beta-lactamase family protein from Caulobacter crescentus NA1000
29% identity, 77% coverage
- EstG is a novel esterase required for cell envelope integrity in Caulobacter
Daitch, Current biology : CB 2023 - “...following strains: wild type (WT), RelA-producing, and RelA-producing with CTL. Notably, we identified a gene, CCNA_01638 (hereafter named estG for E sterase for S tress T olerance acting on G lucans), that appeared to be essential only in the presence of CTL ( Figure 1B ,...”
- “...discussions regarding this work. We thank Patrick Viollier and Jordan Costafrolaz for initial discussions about CCNA_01638. We used Biorender.com to generate Figure 7 . We would also like to thank BlaB, the original name of EstG, for being so fun to say for so many years....”
NP_772348 bll5708 from Bradyrhizobium japonicum USDA 110
30% identity, 88% coverage
blr5541 blr5541 from Bradyrhizobium japonicum USDA 110
28% identity, 85% coverage
AO090010000427 uncharacterized protein from Aspergillus oryzae RIB40
28% identity, 87% coverage
WP_030334201 serine hydrolase domain-containing protein from Micromonospora parva
32% identity, 90% coverage
- Self-resistance in Streptomyces, with Special Reference to β-Lactam Antibiotics
Ogawara, Molecules (Basel, Switzerland) 2016 - “...is related to serine hydrolases of Streptomyces aureus (WP_037619730), Actinokineospora spheciospongiae (WP_035277635) and Micromonospora parva (WP_030334201); SRIM_31085 is similar to PBPs of S. rimosus (WP_030645517), S. albus (WP_060729102) and S. yokosukanensis (KUN09412); BN_7932 is associated with serine hydrolases of Streptomyces venezuelae (WP_055639726), Streptomyces vietnamensis (WP_041132293), and...”
YP_003266771 beta-lactamase from Haliangium ochraceum DSM 14365
31% identity, 77% coverage
bll0805 bll0805 from Bradyrhizobium japonicum USDA 110
26% identity, 79% coverage
WP_035277635 serine hydrolase domain-containing protein from Actinokineospora spheciospongiae
30% identity, 90% coverage
- Self-resistance in Streptomyces, with Special Reference to β-Lactam Antibiotics
Ogawara, Molecules (Basel, Switzerland) 2016 - “.... avermitilis (WP_010988349); SSCG_03668 is related to serine hydrolases of Streptomyces aureus (WP_037619730), Actinokineospora spheciospongiae (WP_035277635) and Micromonospora parva (WP_030334201); SRIM_31085 is similar to PBPs of S. rimosus (WP_030645517), S. albus (WP_060729102) and S. yokosukanensis (KUN09412); BN_7932 is associated with serine hydrolases of Streptomyces venezuelae (WP_055639726),...”
VDAG_03942 beta-lactamase family protein from Verticillium dahliae VdLs.17
27% identity, 86% coverage
MSMEG_6805 serine hydrolase domain-containing protein from Mycolicibacterium smegmatis MC2 155
31% identity, 75% coverage
- Identification of drivers of mycobacterial resistance to peptidoglycan synthesis inhibitors
Olivença, Frontiers in microbiology 2022 - “...intergenic 8bp from TSS of MSMEG_6319 Penicillin-binding protein, transpeptidase (Rv2864c) 3/3 6,853,426 snp A1391C Asp464Ala MSMEG_6805 Beta-lactamase (Rv1730c) EMB R AMX/CLA R 3/3 351,880 snp A191C Glu64Ala MSMEG_0317 Conserved hypothetical protein Rv0227c 3/3 3,413,225 snp T785A Ile262Asn MSMEG_3335 Transcript. Regulator, IclR family protein (Rv2989) 3/3 5,795,546...”
- “...transcriptional regulator ( MSMEG_0448 ). INH R MEM/CLA R isolates additionally possessed a mutation in MSMEG_6805 , a beta-lactamase gene orthologue of Rv1730c and annotated as encoding a possible PBP in Mtb , while EMB R MEM/CLA R mutants had an intergenic mutation upstream the gap...”
MSMEG_6805 beta-lactamase from Mycobacterium smegmatis str. MC2 155
31% identity, 70% coverage
- Identification of drivers of mycobacterial resistance to peptidoglycan synthesis inhibitors
Olivença, Frontiers in microbiology 2022 - “...intergenic 8bp from TSS of MSMEG_6319 Penicillin-binding protein, transpeptidase (Rv2864c) 3/3 6,853,426 snp A1391C Asp464Ala MSMEG_6805 Beta-lactamase (Rv1730c) EMB R AMX/CLA R 3/3 351,880 snp A191C Glu64Ala MSMEG_0317 Conserved hypothetical protein Rv0227c 3/3 3,413,225 snp T785A Ile262Asn MSMEG_3335 Transcript. Regulator, IclR family protein (Rv2989) 3/3 5,795,546...”
- “...transcriptional regulator ( MSMEG_0448 ). INH R MEM/CLA R isolates additionally possessed a mutation in MSMEG_6805 , a beta-lactamase gene orthologue of Rv1730c and annotated as encoding a possible PBP in Mtb , while EMB R MEM/CLA R mutants had an intergenic mutation upstream the gap...”
4p85A Crystal structure of est-y29, a novel penicillin-binding protein/beta- lactamase homolog from a metagenomic library (see paper)
27% identity, 85% coverage
- Ligand: diethyl phosphonate (4p85A)
B1MM83 beta-lactamase (EC 3.5.2.6) from Mycobacteroides abscessus (see paper)
30% identity, 62% coverage
WP_037619730 serine hydrolase domain-containing protein from Streptomyces aureus
29% identity, 90% coverage
- Self-resistance in Streptomyces, with Special Reference to β-Lactam Antibiotics
Ogawara, Molecules (Basel, Switzerland) 2016 - “..., and S . avermitilis (WP_010988349); SSCG_03668 is related to serine hydrolases of Streptomyces aureus (WP_037619730), Actinokineospora spheciospongiae (WP_035277635) and Micromonospora parva (WP_030334201); SRIM_31085 is similar to PBPs of S. rimosus (WP_030645517), S. albus (WP_060729102) and S. yokosukanensis (KUN09412); BN_7932 is associated with serine hydrolases of...”
B446_01315, B446_33975 serine hydrolase domain-containing protein from Streptomyces collinus Tu 365
36% identity, 53% coverage
- Self-resistance in Streptomyces, with Special Reference to β-Lactam Antibiotics
Ogawara, Molecules (Basel, Switzerland) 2016 - “...B446_02000 and B446_33290 in class B -lactamases, and B446_01720 and B446_33570 in -lactamase-like sequences and B446_01315 and B446_33975 in class C -lactamases are also completely identical, indicating that about 7.7 Mb region including these genes were duplicated in the chromosome in the past. In fact, two...”
- “...B446_33290 in class B -lactamases, and B446_01720 and B446_33570 in -lactamase-like sequences and B446_01315 and B446_33975 in class C -lactamases are also completely identical, indicating that about 7.7 Mb region including these genes were duplicated in the chromosome in the past. In fact, two transposases exist...”
FVEG_13172 beta-lactamase from Fusarium verticillioides 7600
25% identity, 85% coverage
- Transcriptomic Response of Fusarium verticillioides to Variably Inhibitory Environmental Isolates of Streptomyces
Satterlee, Frontiers in fungal biology 2022 - “...gene cluster were suppressed by inhibitory strains of Streptomyces. A F. verticillioides beta-lactamase encoding gene (FVEG_13172) was found to be highly induced by specific inhibitory Streptomyces strains and its deletion increased visible response to those strains. This study demonstrates that F. verticillioides does not have an...”
- “...CT method ( Livak and Schmittgen, 2001 ). Deletion of a Strongly Induced Beta-Lactamase Gene, FVEG_13172 To construct F. verticillioides deletion mutants in gene FVEG_13172, the OSCAR deletion plasmid construction method ( Gold etal., 2017 ) was carried out using primers FVEG_13172_OSCAR1-4, with sequences indicated in...”
- Transcriptomic Responses of Fusarium verticillioides to Lactam and Lactone Xenobiotics
Gao, Frontiers in fungal biology 2022 - “...to CZX elicited an equal number of down-regulated lactamase encoding genes, and two of them (FVEG_13172 and FVEG_13253) were also repressed by the CMN treatment. Table8 Lactamase genes differentially expressed upon exposure to BOA, CMN, OXD, and CZX. Group Gene# Mean FPKM log 2 (FC) a...”
- “...FVEG_05854 8.558 0.288 -4.986 2.743E-71 FVEG_09904 4.591 1.972 -1.274 3.837E-07 FVEG_12637 0.353 0.088 -2.039 2.123E-03 FVEG_13172 348.896 1.585 -7.794 3.726E-220 FVEG_13253 0.839 0.279 -1.539 2.664E-04 OXD-up FVEG_09854 78.535 201.618 1.337 2.69E-14 CZX-up FVEG_03849 64.211 142.193 1.141 5.046E-38 FVEG_05734 1.310 4.433 1.690 1.324E-09 FVEG_09854 78.535 201.619 1.337...”
- Pyrrocidine, a molecular off switch for fumonisin biosynthesis
Gao, PLoS pathogens 2020 - “...N 1.50E-02 1.74 NS c FVEG_09433 N 3.90E-04 2.53 NS FVEG_12347 N 3.93E-04 1.45 NS FVEG_13172 N 3.56E-08 1.61 NS FVEG_05854 N NS 3.60E-25 -3.15 FVEG_09904 N NS 2.26E-14 -2.51 FVEG_10996 N NS 2.27E-10 1.28 FVEG_12159 N NS 2.09E-90 2.23 FVEG_12457 N NS 1.88E-39 4.91 FVEG_12526...”
FVEG_12457 beta-lactamase from Fusarium verticillioides 7600
27% identity, 79% coverage
- Transcriptomic Responses of Fusarium verticillioides to Lactam and Lactone Xenobiotics
Gao, Frontiers in fungal biology 2022 - “...expression of eight lactamase-encoding genes. Of the four CZX up-regulated beta-lactamases (FVEG_03849, FVEG_05734, FVEG_09854, and FVEG_12457), FVEG_09854 was also induced by BOA, OXD and CMN treatments ( Table8 ). Exposure to CZX elicited an equal number of down-regulated lactamase encoding genes, and two of them (FVEG_13172...”
- “...FVEG_03849 64.211 142.193 1.141 5.046E-38 FVEG_05734 1.310 4.433 1.690 1.324E-09 FVEG_09854 78.535 201.619 1.337 2.686E-14 FVEG_12457 0.455 1.620 1.608 1.114E-04 CZX-down FVEG_09904 4.662 0.642 -2.585 1.433E-14 FVEG_12347 1.263 0.146 -2.142 1.647E-05 FVEG_13172 354.235 71.106 -2.205 1.548E-15 FVEG_13253 0.851 0.091 -2.131 8.939E-05 a FC, fold change. b...”
- Pyrrocidine, a molecular off switch for fumonisin biosynthesis
Gao, PLoS pathogens 2020 - “...A, and nine were exclusively regulated by pyrrocidine B ( Table 2 ). Although FVEG_05734, FVEG_12457, and FVEG_13675, exhibited over 16-fold changes in gene expression, the average FPKM values remained low after induction at 23, 18, and 74, respectively, indicating their transcripts were not highly abundant...”
- “...FVEG_09904 N NS 2.26E-14 -2.51 FVEG_10996 N NS 2.27E-10 1.28 FVEG_12159 N NS 2.09E-90 2.23 FVEG_12457 N NS 1.88E-39 4.91 FVEG_12526 Y NS 3.35E-02 1.37 FVEG_13253 N NS 1.84E-03 -1.62 FVEG_13675 N NS 4.47E-135 4.07 FVEG_16907 N NS 1.14E-39 -2.97 a p-value, false discovery rate-adjusted p-value...”
- Fungal Lactamases: Their Occurrence and Function
Gao, Frontiers in microbiology 2017 - “...ortholog FGSG_04727 and lacks an ortholog in Fo ( Figure 7 ). FVEG_08291, FVEG_09433, and FVEG_12457 notably exhibited more similarities to orthologs in other Sordariomycetes rather than in closely related Fusarium species. These fall into phylogenetic position C and are thus good candidates for HGT derivation....”
- “...orthologs among other species of the complex were somehow lost. The serine-based lactamase encoded by FVEG_12457 was most similar to its orthologs in A. terreus (NCBI Reference ID: XP_001217058.1) and Penicillium roqueforti (GenBank ID: CDM29397.1) with a sequence identity of over 70%, exceeding the 60% average...”
BP422_09930 cyclic peptide export ABC transporter from Brevibacillus formosus
29% identity, 20% coverage
- A small molecule inhibitor prevents gut bacterial genotoxin production
Volpe, Nature chemical biology 2023 - “...accompanying paper identified a gene encoding a second ClbP homolog in B. formosus (locus tag BP422_09930 in the CP018145.1 genome), suggesting that it produces another family of uncharacterized natural products using a similar prodrug resistance strategy 38 . It is likely that some of the mass...”
FUT48_02000 serine hydrolase domain-containing protein from Pseudomonas sp. JG-B
31% identity, 88% coverage
Rmar_0925 beta-lactamase from Rhodothermus marinus DSM 4252
29% identity, 37% coverage
- Characterization and diversity of the complete set of GH family 3 enzymes from Rhodothermus marinus DSM 4253
Ara, Scientific reports 2020 - “...and as indicated by the gene number, the four genes Rmar_0536 (encoding Rm Bgl3A) , Rmar_0925 (encoding Rm Nag3), Rmar_2069 (encoding Rm Bgl3B) and Rmar_2616 (encoding Rm Bgl3C) were found at different positions the genome, while Rmar_1080 (encoding Rm Xyl3A) and Rmar_1081 (encoding Rm Xyl3B) were...”
- “...proteins ( hyp .); a potential methyltransferase ( duf43 ). ( B ) Downstream of Rmar_0925 are genes encoding: a methylmalonyl-CoA mutase ( mm_coa_mut ); a 1,4-dihydroxy-2-naphthoyl-CoA synthase ( menB ); a 4-phosphopantetheinyl transferase ( sfp ); a superoxide dismutase ( sodA ); a hypothetical protein...”
FVEG_09904 beta-lactamase from Fusarium verticillioides 7600
24% identity, 92% coverage
- Transcriptomic Responses of Fusarium verticillioides to Lactam and Lactone Xenobiotics
Gao, Frontiers in fungal biology 2022 - “...9.454 65.409 2.737 6.898E-156 CMN-down FVEG_04555 9.133 3.657 -1.282 1.142E-17 FVEG_05854 8.558 0.288 -4.986 2.743E-71 FVEG_09904 4.591 1.972 -1.274 3.837E-07 FVEG_12637 0.353 0.088 -2.039 2.123E-03 FVEG_13172 348.896 1.585 -7.794 3.726E-220 FVEG_13253 0.839 0.279 -1.539 2.664E-04 OXD-up FVEG_09854 78.535 201.618 1.337 2.69E-14 CZX-up FVEG_03849 64.211 142.193 1.141...”
- “...1.310 4.433 1.690 1.324E-09 FVEG_09854 78.535 201.619 1.337 2.686E-14 FVEG_12457 0.455 1.620 1.608 1.114E-04 CZX-down FVEG_09904 4.662 0.642 -2.585 1.433E-14 FVEG_12347 1.263 0.146 -2.142 1.647E-05 FVEG_13172 354.235 71.106 -2.205 1.548E-15 FVEG_13253 0.851 0.091 -2.131 8.939E-05 a FC, fold change. b False discovery rate adjusted p-value. MIPS...”
- Pyrrocidine, a molecular off switch for fumonisin biosynthesis
Gao, PLoS pathogens 2020 - “...FVEG_12347 N 3.93E-04 1.45 NS FVEG_13172 N 3.56E-08 1.61 NS FVEG_05854 N NS 3.60E-25 -3.15 FVEG_09904 N NS 2.26E-14 -2.51 FVEG_10996 N NS 2.27E-10 1.28 FVEG_12159 N NS 2.09E-90 2.23 FVEG_12457 N NS 1.88E-39 4.91 FVEG_12526 Y NS 3.35E-02 1.37 FVEG_13253 N NS 1.84E-03 -1.62 FVEG_13675...”
PCEST_PENRW / B6H6L7 Lovastatin esterase; PcEST; EC 3.1.1.- from Penicillium rubens (strain ATCC 28089 / DSM 1075 / NRRL 1951 / Wisconsin 54-1255) (Penicillium chrysogenum) (see 2 papers)
Pc15g00720 uncharacterized protein from Penicillium rubens
27% identity, 93% coverage
- function: Esterase that can hydrolyze the side chain of lovastatin to produce monacolin J (PubMed:28619444, PubMed:31839596). Is also able to hydrolyze the side chains of mevastatin and pravastatin, but not simvastatin (PubMed:28619444).
catalytic activity: lovastatin + H2O = monacolin J + (S)-2-methylbutanoate + H(+) (RHEA:62748)
catalytic activity: pravastatin lactone + H2O = pravastatin diol lactone + (S)-2- methylbutanoate + H(+) (RHEA:62752)
catalytic activity: mevastatin + H2O = compactin diol lactone + (S)-2- methylbutanoate + H(+) (RHEA:62744) - Penicillium chrysogenum, a Vintage Model with a Cutting-Edge Profile in Biotechnology
Fierro, Microorganisms 2022 - “...the production of undesirable deacylated compactin as a by-product, a putative esterase encoded by the Pc15g00720 gene was deleted. Finally, the last step necessary to produce pravastatin, the hydroxylation of compactin, was achieved by the introduction of an evolved cytochrome P450 (compactin hydrolase) from Amycolatopsis orientalis...”
- Single-step fermentative production of the cholesterol-lowering drug pravastatin via reprogramming of Penicillium chrysogenum
McLean, Proceedings of the National Academy of Sciences of the United States of America 2015 (secret) - Proteome analysis of the penicillin producer Penicillium chrysogenum: characterization of protein changes during the industrial strain improvement
Jami, Molecular & cellular proteomics : MCP 2010 - “...and contains a 1,4-butanediol diacrylate esterase, BDA1 (Pc15g00720), that might act as a -lactamase (see "Discussion"). In general, these enzymes involved...”
6kjdB / B6H6L7 Lovastatin esterase pcest inactive mutant s57a in complex with lovastatin
27% identity, 93% coverage
- Ligand: (3r,5r)-7-((1r,2r,6s,8r,8as)-2,6-dimethyl-8-{[(2r)-2-methylbutanoyl]oxy}-1,2,6,7,8,8a-hexahydronaphthalen-1-yl)-3,5-dihydroxyheptanoic acid (6kjdB)
CDR20291_1318 cell wall-binding protein Cwp20 from Clostridioides difficile R20291
CDR20291_1318 cell surface protein (putative penicillin-binding protein) from Clostridium difficile R20291
28% identity, 28% coverage
- Dual RNA-seq identifies genes and pathways modulated during Clostridioides difficile colonization
Frost, mSystems 2023 - “...( 14 ), cwp13 (CDR20291_1645), cwp14 (CDR20291_2624), cwp17 (CDR20291_0892), cwp18 (CDR20291_0903), cwp19 (CDR20291_2655), and cwp20 (CDR20291_1318) were downregulated at all timepoints after infection. codY (CDR20291_1115), a global transcriptional regulator ( 40 ), was significantly downregulated at 6, 12, and 24 hours after infection, and fliC (CDR20291_0240)...”
- Dual RNA-seq identifies proteins and pathways modulated duringClostridioides difficilecolonisation
Frost, 2023
TRV_06912 uncharacterized protein from Trichophyton verrucosum HKI 0517
25% identity, 12% coverage
- Comparative and functional genomics provide insights into the pathogenicity of dermatophytic fungi
Burmester, Genome biology 2011 - “...Reducing ARB_01525 TRV_04236 CIMG_13632 KS-AT-ME-ER-KR-ACP ARB_05854 TRV_06867 - KS-AT-KR-ACP b ARB_06393 TRV_01071 - KS-AT-ME-ER-KR-ACP ARB_05333 TRV_06912 CIMG_02398 KS-AT-DH-MT-ER-KR-ACP ARB_07933 TRV_04104 - KS-AT-ME-ER-KR-ACP ARB_07966 TRV_04285 - KS-AT-ME-KR-ACP - - CIMG_05569 KS-AT-DH-ER-KR-ACP - - CIMG_03014 KS-AT-DH-ER-KR-ACP ARB_00195 TRV_05651 CIMG_07298 A-T-C-T-C - - CIMG_01429 A-T-C-T ARB_01698 TRV_01735 CIMG_09750 C-A-T-C-A-T-C-A-T-C-A-T-C-A-T-C-T-C-T...”
CD630_14690 cell wall-binding protein Cwp20 from Clostridioides difficile 630
Q18BY9 Cell surface protein putative penicillin-binding protein cwp20 from Clostridioides difficile (strain 630)
CD1469 cell surface protein (putative penicillin-binding protein) from Clostridium difficile 630
28% identity, 28% coverage
- Differential gene expression analysis shows that cephalosporin resistance is intrinsic to Clostridioides difficile strain 630
Turello, The Journal of antibiotics 2025 - “...0.79 NC CD630_14060 2.1 0.37 NC 2.2 0.46 NC CD630_14690 0.8 0.18 NC 1.5 0.32 NC CD630_16270 (vanY) 9.6 0.98 Upregulated 15.6 4.15 Upregulated CD630_18020 1.6...”
- Host Immune Responses to Surface S-Layer Proteins (SLPs) of Clostridioides difficile
Chandra, Microorganisms 2023 - “...[ 40 ] Cwp19 CD630_27670 Unknown function but may cleave peptidoglycan. [ 41 ] Cwp20 CD630_14690 Presence of lactamase domain. -lactam antibiotics resistance, putative penicillin-binding protein. [ 24 ] Cwp21 CD630_31920 Has three PepSY domains. May be involved in protease inhibitors. Putative cell surface peptidase. [...”
- A novel secreted metalloprotease (CD2830) from Clostridium difficile cleaves specific proline sequences in LPXTG cell surface proteins
Hensbergen, Molecular & cellular proteomics : MCP 2014 - “...Q183K2 Q183R7 Q18A65 Yes Yes Yes Yes Yes Q183M5 Q18BY9 CD2791 CD1469 CD1522 CD2784 CD2193 CD1156 CD0183 CD2672 CD1135 CD1035 CD2388 CD2789 CD2798 CD2127 CD2797...”
- The Ser/Thr Kinase PrkC Participates in Cell Wall Homeostasis and Antimicrobial Resistance in Clostridium difficile
Cuenot, Infection and immunity 2019 - “...Gene IDd CWB2 motif Down in prkC mutant CD1233 CD1469 CD2518 CD2795 CD0440 CD2735b CD2798 CD2767 CD1803 CD2786 CD1751 CD2787 CD2193 CD0844 CD3192 CD2789 CD2791...”
- A novel secreted metalloprotease (CD2830) from Clostridium difficile cleaves specific proline sequences in LPXTG cell surface proteins
Hensbergen, Molecular & cellular proteomics : MCP 2014 - “...Q18A65 Yes Yes Yes Yes Yes Q183M5 Q18BY9 CD2791 CD1469 CD1522 CD2784 CD2193 CD1156 CD0183 CD2672 CD1135 CD1035 CD2388 CD2789 CD2798 CD2127 CD2797 CD1304 CD2408...”
- Comparative transcriptional analysis of clinically relevant heat stress response in Clostridium difficile strain 630
Ternan, PloS one 2012 - “...due to the infection [6] . Interestingly, a number of known virulence factors, including cwp20 (CD1469), cwp5 (CD2786), and CD3567 encoding a cell wall hydrolase were down regulated in our microarray dataset, adding further evidence that virulence of C. difficile is set at 37C. 10.1371/journal.pone.0042410.g004 Figure...”
- Modulation of toxin production by the flagellar regulon in Clostridium difficile
Aubry, Infection and immunity 2012 - “...0.10 308 33.7 111.1 5.5 5.2 6.4 CD0663 CD0844 CD1469 tcdA 126699412 126700164 126700286 Not observed in 630erm CD0240::erm 0.33 0.10 0.11 0.003 63.7 68 58.1 8.8...”
- Microarray identification of Clostridium difficile core components and divergent regions associated with host origin
Janvilisri, Journal of bacteriology 2009 - “...potential virulence factors include six cell surface proteins (CD1469, CD1751, CD1987, CD2767, CD2784, and CD2799), one of the two fibronectin binding protein...”
CALJ_PENDC / P0CU81 Acyltransferase calJ; Calbistrin biosynthesis cluster protein J; EC 2.3.1.- from Penicillium decumbens (see 3 papers)
27% identity, 76% coverage
- function: Acyltransferase; part of the gene cluster that mediates the biosynthesis of calbistrin A and related compounds. Calbistrin A is a secondary metabolite with an interesting structure that was recently found to have bioactivity against leukemia cells. It consists of two polyketides linked by an ester bond: a bicyclic decalin containing polyketide and a linear 12 carbon dioic acid structure (PubMed:30598828). The polyketide synthase calA is probably responsible for forming the decalin moiety. Because calA lacks a designated enoylreductase (ER) domain, the required activity is provided by the trans-enoyl reductase calK (PubMed:30598828). Following release from the PKS, calF then probably catalyzes the oxidation and the subsequent Diels Alder cycloisomerization that lead to the formation of the decalin moiety (Probable). The decalin polyketide backbone includes two C-methyl groups, at C7 and C11 in backbone, of which the C7 position is probably methylated by the methyltransferase domain of calA. A candidate for adding the methyl group at C11, if not done by CalA, is the cluster methyltransferase calH (Probable). Several additional tailoring enzymes within the cluster could be involved in the modification of the decalin polyketide product. Those include the 3 cytochrome P450 monooxygenases CalE, CalG and CalL, of which one might be responsible for the introduction of the extra hydroxyl group attached to the backbone of the decalin moiety, at position C9 in the backbone, that allows for attachment of the linear moiety (Probable). One tailoring enzyme activity that is expected to be involved in biosynthesis of calbistrin is an acyltransferase for connecting the two polyketide synthase products, and which could be performed by the cluster acyltransferase calJ (Probable). The enzyme responsible for the biosynthesis of the linear moiety, probably a second PKS, has not been identified yet (Probable).
adp / CAA09676.1 D-stereospecific peptide hydrolase from Bacillus cereus (see paper)
29% identity, 74% coverage
BurJV3_2956 serine hydrolase domain-containing protein from Stenotrophomonas maltophilia JV3
38% identity, 50% coverage
- Comparative Genomics of Environmental and Clinical Stenotrophomonas maltophilia Strains with Different Antibiotic Resistance Profiles
Youenou, Genome biology and evolution 2015 - “...ALOG_130332 SMBUR_30157 AGRB_840024 SMD_2694 BurJV3_2565 Smal_2553 SmPIER_440066 Putative beta-lactamase Smlt_3495 SmBFE_300159 ALOG_130697 SMBUR_40170 AGRB_750011 SMD_3077 BurJV3_2956 Smal_2923 SmPIER_460297 Putative beta-lactamase Smlt_3652 SmBFE_320074 ALOG_130847 SMBUR_360003 AGRB_1350018 SMD_3220 BurJV3_3098 Smal_3068 SmPIER_500018 Putative metallo-beta-lactamase superfamily protein Smlt_3807 SmBFE_330125 ALOG_150056 SMBUR_200003 AGRB_1380014 SMD_3409 BurJV3_3251 Smal_3222 SmPIER_500189 Putative metallo-beta-lactamase superfamily protein...”
ZP_00239307 beta-lactamase from Bacillus cereus G9241
29% identity, 48% coverage
CCNA_00255 esterase from Caulobacter crescentus NA1000
29% identity, 90% coverage
BTB_c32720 serine hydrolase domain-containing protein from Bacillus thuringiensis Bt407
28% identity, 42% coverage
- The fliK Gene Is Required for the Resistance of Bacillus thuringiensis to Antimicrobial Peptides and Virulence in Drosophila melanogaster
Attieh, Frontiers in microbiology 2020 - “...encoding the cell wall-associated hydrolase LytF1, the gene BTB_c28480 encoding the NprM bacillolysin and the BTB_c32720 gene encoding a hypothetical protein with a -lactamase motif characteristic of penicillin-binding proteins ( Table 1 ). TABLE 1 Loci of mini-Tn 10 insertions in the selected polymyxin B sensitive...”
- “...Endopeptidase, a cell wall associated hydroslase (LytF1) PSC3 BTB_c28480 Bacillolysin, a Bacillus metalloendopetitase (NprM) PSC4 BTB_c32720 Hypothetical protein (with a -lactamase motif characteristic of penicillin-binding proteins) To address the primary objective of this study, which is the identification of genes involved in the resistance to innate...”
P94288 Alkaline D-peptidase from Bacillus cereus
34% identity, 44% coverage
EcHS_A2566 beta-lactamase from Escherichia coli HS
25% identity, 77% coverage
- Identification and prioritization of novel uncharacterized peptidases for biochemical characterization
Rawlings, Database : the journal of biological databases and curation 2013 - “...Basidiomycota) Plantae (Chlorophyta, Ochrophyta, Oomycota, Rhodophyta, Streptophyta, Tracheophyta) Animalia (Arthropoda, Chordata, Echinodermata, Hemichordata, Nematoda) S12.A03 EcHS_A2566 protein ( E. coli ) 180 Bacteria (Bacteroidetes, Chlorobi, Chloroflexi, Cyanobacteria, Firmicutes, Fusobacteria, Nitrospirae, Planctomycetes, Proteobacteria, Spirochaetes, Thermotogae, Xenobacteria) Archaea (Euryarchaeota) Fungi (Ascomycota) S12.A23 GYO_0385 protein ( B. subtilis )...”
Smal_2923 beta-lactamase from Stenotrophomonas maltophilia R551-3
38% identity, 50% coverage
- Comparative Genomics of Environmental and Clinical Stenotrophomonas maltophilia Strains with Different Antibiotic Resistance Profiles
Youenou, Genome biology and evolution 2015 - “...SMBUR_30157 AGRB_840024 SMD_2694 BurJV3_2565 Smal_2553 SmPIER_440066 Putative beta-lactamase Smlt_3495 SmBFE_300159 ALOG_130697 SMBUR_40170 AGRB_750011 SMD_3077 BurJV3_2956 Smal_2923 SmPIER_460297 Putative beta-lactamase Smlt_3652 SmBFE_320074 ALOG_130847 SMBUR_360003 AGRB_1350018 SMD_3220 BurJV3_3098 Smal_3068 SmPIER_500018 Putative metallo-beta-lactamase superfamily protein Smlt_3807 SmBFE_330125 ALOG_150056 SMBUR_200003 AGRB_1380014 SMD_3409 BurJV3_3251 Smal_3222 SmPIER_500189 Putative metallo-beta-lactamase superfamily protein Smlt_3991...”
P15555 D-alanyl-D-alanine carboxypeptidase from Streptomyces sp. (strain R61)
31% identity, 47% coverage
- Phytophthora : taxonomic and phylogenetic revision of the genus.
Abad, Studies in mycology 2023 (no snippet) - A novel family VIII carboxylesterase hydrolysing third- and fourth-generation cephalosporins
Jeon, SpringerPlus 2016 - “...Enterobacter cloacae , P05364) and penicillin-binding proteins are represented by PBP-1 ( Streptomyces sp. R61, P15555) and PBP-2 ( Bacillus cereus , CAA09676). Asterisks indicate conserved active site residues. Identical residues are shown as white letters on a dark background Fig.2 Phylogenetic relationship of EstSTR1 with...”
- Biochemical and Structural Analysis of a Novel Esterase from Caulobacter crescentus related to Penicillin-Binding Protein (PBP)
Ryu, Scientific reports 2016 - “...showed that CcEstA shared some sequence identity with D-Ala-D-Ala transpeptidase from Streptomyces sp. R61 (16.5%, P15555), and Bacillus halodurans (14.5%, P32959), and with -lactamases from Ochrobactrum anthropi SV3 (14.0%, Q9ZBA9) and Enterobacter cloacae (16.0%, P05364). In protein databases, similar sequences to CcEstA were mainly annotated as...”
- Classification of Beta-lactamases and penicillin binding proteins using ligand-centric network models.
Öztürk, PloS one 2015 - “...joins Cluster 1 of the normalized weighted similarity network, where it is connected to PBP (P15555) because of the similarity between REZ and REX (Peptidoglycan substrate fragment) which is 0.77, and the similarity between REZ and REY (Peptidoglycan substrate fragment) which is 0.87. The weight of...”
- “...A P00811 ampC C 4 P00811 ampC C Q9L5C8 CTX-M-9a A 4 Q47066 Toho-1 A P15555 DD carbox. PBP 3 P62593 TEM A Q9L5C8 CTX-M-9a A 3 P0AD64 SHV-1 A Q5VCA8 blaSHV-49 A 3 Pairs are displayed in descending order of the weights of the edges...”
- Phytopythium: molecular phylogeny and systematics.
de, Persoonia 2015 - “...JN635257 HQ261399 Phytophthora pseudotsugae CBS444.84 Clade 1 HQ708381 HQ665234 P10218 Clade 1 JN635207 Phytophthora quercetorum P15555 Clade 4 HQ261404 PD01105 Clade 4 EU080905 Phytophthora quercina P10334 Clade 4 JN635198 Phytophthora quininea CBS407.48 Clade 9 HQ708386 HQ665230 P3247 Clade 9 JN635110 Phytophthora ramorum CBS101553 Clade 8 HQ708387...”
- Novel metagenome-derived carboxylesterase that hydrolyzes β-lactam antibiotics
Jeon, Applied and environmental microbiology 2011 - “...are represented by PBP-1 (Streptomyces sp. strain R61; P15555) and PBP-2 (Bacillus cereus; CAA09676). The conserved S-X-X-K motif is boxed, and asterisks...”
- Evolution of a family of metazoan active-site-serine enzymes from penicillin-binding proteins: a novel facet of the bacterial legacy
Peitsaro, BMC evolutionary biology 2008 - “...). For comparison we included the corresponding amino acid segments from the D-alanyl-D-alanine carboxypeptidase [Swiss-Prot: P15555 ] of the actinobacterium Streptomyces sp. strain R61, which is perhaps the most extensively studied PBP-L family protein [ 22 , 23 ]. The alignment shows that the active site...”
- “...in LACTB orthologs. The corresponding motifs in the Streptomyces sp. strain R61 D-alanyl-D-alanine carboxypeptidase [Swiss-Prot: P15555 ] are included. Abbreviations for species names, in order: Homsa, Homo sapiens (Swiss-Prot: P83111 ); Macmu, Macaca mulatta (Ensembl:ENSMMUP00000004719); Musmu, Mus musculus (Swiss-Prot: Q9EP89 ); Orycu, Oryctolagus cuniculus (Ensembl:ENSOCUP00000008608); Canfa,...”
1cefA / P15555 Cefotaxime complexed with the streptomyces r61 dd-peptidase (see paper)
31% identity, 48% coverage
- Ligand: cefotaxime, c3' cleaved, open, bound form (1cefA)
Smal_2573 beta-lactamase from Stenotrophomonas maltophilia R551-3
29% identity, 64% coverage
yfeW / P77619 penicillin binding protein 4B (EC 3.4.16.4) from Escherichia coli (strain K12) (see 3 papers)
YFEW_ECOLI / P77619 Putative D-alanyl-D-alanine carboxypeptidase; DD-carboxypeptidase; DD-CPase; Penicillin binding protein 4B; EC 3.4.16.4 from Escherichia coli (strain K12) (see paper)
b2430 putative beta-lactamase from Escherichia coli str. K-12 substr. MG1655
25% identity, 77% coverage
acmB / A1IHE7 methyl acetate hydrolase (EC 3.1.1.114) from Gordonia sp. (strain TY-5) (see paper)
ACMB_GORST / A1IHE7 Methyl acetate hydrolase; EC 3.1.1.114 from Gordonia sp. (strain TY-5) (see paper)
A1IHE7 methyl acetate hydrolase (EC 3.1.1.114) from Gordonia sp. TY-5 (see paper)
28% identity, 79% coverage
- function: Plays an important role in the metabolism of acetone derived from propane oxidation (PubMed:17071761). Catalyzes the hydrolysis of methyl acetate to acetate and methanol (PubMed:17071761).
catalytic activity: methyl acetate + H2O = methanol + acetate + H(+) (RHEA:60440)
TERG_05698 uncharacterized protein from Trichophyton rubrum CBS 118892
21% identity, 95% coverage
- The Transcriptional Profile of Trichophyton rubrum Co-Cultured with Human Keratinocytes Shows New Insights about Gene Modulation by Terbinafine
Petrucelli, Pathogens (Basel, Switzerland) 2019 - “...targets that were also modulated in the presence of the drug (TERG_03223; TERG_08480; TERG_03861; TERG_08058; TERG_05698; TERG_02694). The gene expression results obtained by RNA-seq showed a strong correlation (r = 0.93, p < 0.001) with the gene modulation values obtained by qPCR, demonstrating the reproducibility and...”
- “...Hypothetical protein Arthroderma benhamiae CBS 112371 ABC-transporter, putative (2336 nt) TERG_07199 2.35 Hypothetical protein - TERG_05698 2.33 Beta-lactamase Trichophyton verrucosum HKI 0517 transesterase (LovD), putative (1428 nt) TERG_07539 2.30 Hypothetical protein Trichophyton tonsurans CBS 112818 multidrug resistance protein (2253 nt) TERG_11621 2.27 Hypothetical protein - TERG_02161...”
WP_083750206 glycoside hydrolase family 3 N-terminal domain-containing protein from Rhodohalobacter halophilus
25% identity, 37% coverage
NP_001041033 Beta-lactamase-related domain-containing protein from Caenorhabditis elegans
24% identity, 75% coverage
SCA_1921 serine hydrolase domain-containing protein from Staphylococcus carnosus subsp. carnosus TM300
Sca_1921 hypothetical protein from Staphylococcus carnosus subsp. carnosus TM300
24% identity, 41% coverage
FVEG_09854 beta-lactamase from Fusarium verticillioides 7600
25% identity, 88% coverage
- Transcriptomic Responses of Fusarium verticillioides to Lactam and Lactone Xenobiotics
Gao, Frontiers in fungal biology 2022 - “...1.15E-66 NmrA-like family FVEG_09320 1.342 4.66E-02 1.687 1.27E-02 1.684 6.28E-03 2.472 3.37E-06 Heterokaryon incompatibility protein FVEG_09854 1.499 1.68E-18 1.337 2.69E-14 1.353 1.75E-19 1.115 3.78E-11 Beta-lactamase FVEG_11329 1.106 9.70E-22 1.005 1.74E-17 3.161 6.18E-253 1.744 1.25E-56 Lysine N-acyltransferase FVEG_11958 1.509 8.69E-04 1.382 4.86E-03 5.539 1.23E-46 2.054 2.54E-07 C4-dicarboxylate...”
- “...etal., 2016 ), we also observed the significant induction of two more lactamase encoding genes, FVEG_09854 and FVEG_12526 ( Table8 ). FVEG_12347 was the only down-regulated lactamase encoding gene upon exposure to BOA ( Table8 ). Exposure to CMN caused the differential expression of ten lactamase...”
- Pyrrocidine, a molecular off switch for fumonisin biosynthesis
Gao, PLoS pathogens 2020 - “...p-value Log2 FC FVEG_03849 N 5.41E-67 1.52 0 3.77 FVEG_05734 N 1.55E+00 1.55 1.37E-57 4.05 FVEG_09854 N 2.42E-14 1.31 7.49E-15 1.30 FVEG_12637 N 2.44E-03 -2.08 4.89E-03 -1.78 FVEG_05685 N 1.50E-02 1.74 NS c FVEG_09433 N 3.90E-04 2.53 NS FVEG_12347 N 3.93E-04 1.45 NS FVEG_13172 N 3.56E-08...”
7v1yA / P83111 Serine beta-lactamase-like protein lactb in complex with inhibitor (see paper)
23% identity, 81% coverage
WP_004621811 serine hydrolase domain-containing protein from Caulobacter vibrioides OR37
28% identity, 90% coverage
Q8XBJ0 Putative D-alanyl-D-alanine carboxypeptidase from Escherichia coli O157:H7
24% identity, 81% coverage
MAA_08059 beta-lactamase from Metarhizium robertsii ARSEF 23
25% identity, 96% coverage
- Insertion of an esterase gene into a specific locust pathogen (Metarhizium acridum) enables it to infect caterpillars
Wang, PLoS pathogens 2011 - “...Pr1E (MAA_03281) and a subtilisin-like protease (MAA_03282). The M. robertsii genome also contains a paralog (MAA_08059) with 42% identity to MEST1 that is downstream of three hypothetical proteins and upstream of a glutathione S-transferase. The genome of M. acridum strain CQMa 102 lacks an ortholog of...”
- “...hypothetical proteins and upstream of glutathione S-transferase indicating that it is syntenic with its ortholog MAA_08059. Homologs to MEST1 and MAA_08059 were identified in four other ascomycete fungi, but only the related Nectria haematococca had a sequence (EEU_38198) that was highly similar (82% identity) to MEST1....”
BASU_1403 serine hydrolase domain-containing protein from Bacillus velezensis UCMB5113
27% identity, 78% coverage
AAV30_12135 serine hydrolase domain-containing protein from Bacillus velezensis
27% identity, 78% coverage
WP_030645517 serine hydrolase domain-containing protein from Streptomyces rimosus subsp. rimosus
30% identity, 65% coverage
- Self-resistance in Streptomyces, with Special Reference to β-Lactam Antibiotics
Ogawara, Molecules (Basel, Switzerland) 2016 - “...Actinokineospora spheciospongiae (WP_035277635) and Micromonospora parva (WP_030334201); SRIM_31085 is similar to PBPs of S. rimosus (WP_030645517), S. albus (WP_060729102) and S. yokosukanensis (KUN09412); BN_7932 is associated with serine hydrolases of Streptomyces venezuelae (WP_055639726), Streptomyces vietnamensis (WP_041132293), and Streptomyces antibioticus (WP_059193915); SSQS_02491 is similar to serine hydrolases...”
AKJ10_06095 serine hydrolase domain-containing protein from Bacillus velezensis
27% identity, 78% coverage
PBPE_BACSU / P32959 Penicillin-binding protein 4*; PBP 4*; PBP 4A; Penicillin-binding protein E from Bacillus subtilis (strain 168) (see paper)
BSU34440 penicillin-binding protein 4* from Bacillus subtilis subsp. subtilis str. 168
NP_391324 penicillin-binding protein 4* from Bacillus subtilis subsp. subtilis str. 168
28% identity, 43% coverage
- function: Probably involved in peptidoglycan modification during cortex synthesis
- An exhaustive multiple knockout approach to understanding cell wall hydrolase function in Bacillus subtilis
Wilson, mBio 2023 - “...( 30 , 31 ) Amidase, DDEP ( 31 ) Beta-lactamase (PF00144) pbpE Y/KO P32959 BSU34440 sigW^* 3.40 E-61 ( 32 ) SU ( 32 ) pbpX Y/KO O31773 BSU16950 sigM^*, sigV^*, sigW^, sigX^* 7.90 E-54 Similarity; pbpE ND amiE (ybbE) Y O05213 BSU01670 murR* 7.40...”
- An Exhaustive Multiple Knockout Approach to Understanding Cell Wall Hydrolase Function inBacillus subtilis
Wilson, 2021 - High salt stress in Bacillus subtilis: involvement of PBP4* as a peptidoglycan hydrolase.
Palomino, Research in microbiology 2009 (PubMed)- GeneRIF: PBP4* has murein hydrolyze activity. Peptidoglycan is modified in response to high salt and that PBP4* contributes to this modification.
- An exhaustive multiple knockout approach to understanding cell wall hydrolase function in Bacillus subtilis
Wilson, mBio 2023 - “...E-79 ( 30 , 31 ) Amidase, DDEP ( 31 ) Beta-lactamase (PF00144) pbpE Y/KO P32959 BSU34440 sigW^* 3.40 E-61 ( 32 ) SU ( 32 ) pbpX Y/KO O31773 BSU16950 sigM^*, sigV^*, sigW^, sigX^* 7.90 E-54 Similarity; pbpE ND amiE (ybbE) Y O05213 BSU01670 murR*...”
- Synthesis and biochemical evaluation of cephalosporin analogues equipped with chemical tethers
Miller, RSC advances 2020 - “...Materials AmpC (Uniprot ID: P00811) was purchased from Abcam plc (Cambridge, UK). PBP4 (Uniprot ID: P32959) was purchased from Generon (Slough, UK). Expression and purification of PBP3 A truncated version of the ftsI gene formed of residues W44-S588, encoding only the soluble domain, was amplified from...”
- Biochemical and Structural Analysis of a Novel Esterase from Caulobacter crescentus related to Penicillin-Binding Protein (PBP)
Ryu, Scientific reports 2016 - “...sequence identity with D-Ala-D-Ala transpeptidase from Streptomyces sp. R61 (16.5%, P15555), and Bacillus halodurans (14.5%, P32959), and with -lactamases from Ochrobactrum anthropi SV3 (14.0%, Q9ZBA9) and Enterobacter cloacae (16.0%, P05364). In protein databases, similar sequences to CcEstA were mainly annotated as members of the PBP or...”
- A genomic sample sequence of the entomopathogenic bacterium Photorhabdus luminescens W14: potential implications for virulence
Ffrench-Constant, Applied and environmental microbiology 2000 - “...(0) 3e-11 5e-59 02059, 02237 01997 157 56 Bacillus subtilis P32959 2 (0) 2e-07, 2e-10 00417, 02075 142 E. coli E. coli H. influenzae D90801 AE000308 P45123 2...”
MAC_02852 uncharacterized protein from Metarhizium acridum
30% identity, 53% coverage
3wwxA / E2RVJ1 Crystal structure of d-stereospecific amidohydrolase from streptomyces sp. 82f2 (see paper)
33% identity, 50% coverage
- Ligand: octane 1,8-diamine (3wwxA)
MOKF_MONPI / Q3S2U2 Acyltransferase mokF; Lovastatin hydrolase; Monacolin K biosynthesis protein F; EC 2.3.1.238 from Monascus pilosus (Red mold) (see 2 papers)
28% identity, 68% coverage
- function: Acyltransferase; part of the gene cluster that mediates the biosynthesis of monakolin K, also known as lovastatin, and which acts as a potent competitive inhibitor of HMG-CoA reductase (PubMed:18578535). Monakolin K biosynthesis is performed in two stages (PubMed:19693441). The first stage is catalyzed by the nonaketide synthase mokA, which belongs to type I polyketide synthases and catalyzes the iterative nine-step formation of the polyketide (PubMed:18578535, PubMed:19693441). This PKS stage is completed by the action of dehydrogenase mokE, which catalyzes the NADPH-dependent reduction of the unsaturated tetra-, penta- and heptaketide intermediates that arise during the mokA-mediated biosynthesis of the nonaketide chain and leads to dihydromonacolin L (PubMed:19693441). Covalently bound dihydromonacolin L is released from mokA by the mokD esterase (By similarity). Conversion of dihydromonacolin L into monacolin L and then monacolin J is subsequently performed with the participation of molecular oxygen and P450 monoogygenase mokC (PubMed:19693441). Finally, mokF performs the conversion of monacoline J to monacoline K through the addition of the side-chain diketide moiety (2R)-2-methylbutanoate produced by the diketide synthase mokB (PubMed:19693441).
catalytic activity: monacolin J carboxylate + (S)-2-methylbutanoyl-[2- methylbutanoate polyketide synthase] = lovastatin carboxylate + holo- [2-methylbutanoate polyketide synthase] (RHEA:43064)
RBAM_014410 MlnI from Bacillus amyloliquefaciens FZB42
27% identity, 78% coverage
WP_103019701 glycoside hydrolase family 3 N-terminal domain-containing protein from Salinibacter altiplanensis
28% identity, 37% coverage
Q8Y9I8 Lmo0540 protein from Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
lmo0540 similar to penicillin-binding protein from Listeria monocytogenes EGD-e
26% identity, 47% coverage
- Purification, crystallization and preliminary X-ray crystallographic analysis of Lmo0540 from Listeria monocytogenes
Jeong, Acta crystallographica. Section F, Structural biology and crystallization communications 2011 - “...the putative penicillin-binding protein Lmo0540 (UniProt accession No. Q8Y9I8) was amplified by the polymerase chain reaction (PCR) with Pfu DNA polymerase from...”
- Comparative analysis of extracellular and intracellular proteomes of Listeria monocytogenes strains reveals a correlation between protein expression and serovar
Dumas, Applied and environmental microbiology 2008 - “...Q8Y449 Q8Y971 Q8Y4C0 Q8Y4C8 Q8Y4C8 Q8Y4C8 Q8Y4E2 Q8Y4E2 Q8Y464 Q8Y9I8 Q71WS4 Q71WS4 P21171 Q71WQ6 Q71VX5 Q71WX0 2060 2816 2939 3655 1719 3089 2813 2838 2156...”
- Executioner caspases degrade essential mediators of pathogen-host interactions to inhibit growth of intracellular Listeria monocytogenes
Lavergne, Cell death & disease 2025 - “...A0A0H3GFB7 lmo1059 Phosphocarrier protein HPr A0A0H3GFK1 lmo1002 Antigen A A0A0H3GGY8 lmo0118 Beta-lactamase domain-containing protein A0A0H3GI09 lmo0540 N-acetylmuramoyl-L-alanine amidase A0A0H3GJB3 lmo2591 DNA-directed RNA polymerase subunit alpha A0A0H3GJC8 lmo2606 Competence protein ComEA A0A0H3GKB9 lmo1484 Uncharacterized protein A0A0H3GMD3 lmo2203 Putative septation protein SpoVG A0A0H3GD80 lmo0197 Peptide/nickel transport system substrate-binding...”
- Landscape of Stress Response and Virulence Genes Among Listeria monocytogenes Strains
Lakicevic, Frontiers in microbiology 2021 - “...proteins associated with the membrane, such as the penicillin-binding proteins coded by the lmo0441 , lmo0540 , lmo1892 genes, and lmo2229 as mentioned earlier, as well as the gene coding for B , all of which were reported to be more expressed in lineage II than...”
- Cold Shock Proteins Promote Nisin Tolerance in Listeria monocytogenes Through Modulation of Cell Envelope Modification Responses
Muchaamba, Frontiers in microbiology 2021 - “...in BHI, it was shown that there was reduced abundance in mRNA associated with PBP Lmo0540, whereas those for PBPs Lmo2754, Lmo2309, Lmo1438, and Lmo1892 were increased in the cspABD mutant compared to the WT strain ( Figure 7 ). Overall, our analysis of gene expression...”
- “...al., 2001 , 2004 ). In this study, we observed a downregulation of PBP gene lmo0540 in the WT strain, while PBPs encoding genes lmo2754 , lmo2309 , lmo1438 , and lmo1892 were upregulated in the cspABD mutant compared to the WT strain. Such differential gene...”
- The Analysis of Field Strains Isolated From Food, Animal and Clinical Sources Uncovers Natural Mutations in Listeria monocytogenes Nisin Resistance Genes
Wambui, Frontiers in microbiology 2020 - “...of several cell membrane-associated genes, including those for penicillin binding proteins (PBPs) ( lmo0441 , lmo0540 , lmo1892 , and lmo2229 ) and general stress response gene sigB , which were reported to be highly expressed in Lineage II than Lineage I ( Severino et al.,...”
- Exploring Listeria monocytogenes Transcriptomes in Correlation with Divergence of Lineages and Virulence as Measured in Galleria mellonella
Lee, Applied and environmental microbiology 2019 (secret) - Mutation of the Transcriptional Regulator YtoI Rescues Listeria monocytogenes Mutants Deficient in the Essential Shared Metabolite 1,4-Dihydroxy-2-Naphthoate (DHNA)
Chen, Infection and immunity 2019 - “...the lftRS operon (26). Other SNPs in lafC, dxr, and lmo0540 are predicted to be silent mutations. Interestingly 4 out of 5 of the mds isolates had distinct...”
- “...lmo1593 lmo1936 lmo0199 lmo0947 lmo1317 lmo1576 lmo0090 lmo0259 lmo0540 lmo1576 lmo2735 prs lmo1851 lmo2735 lmo0199 lmo1851 SNP G19A G1277A C72T C289T G1276A...”
- Biocide-Tolerant Listeria monocytogenes Isolates from German Food Production Plants Do Not Show Cross-Resistance to Clinically Relevant Antibiotics
Roedel, Applied and environmental microbiology 2019 - “...binding protein genes lmo1892 , lmo2039 , lmo1438 , lmo2229 , lmo0441 , lmo2754 , lmo0540 , lmo1916 , lmo1855 , and lmo2812 (NCBI RefSeq accession no. NC_003210 ) were analyzed for single-nucleotide polymorphisms which might contribute to meropenem resistance ( 73 , 74 ). Furthermore,...”
- Listeria monocytogenes σA Is Sufficient to Survive Gallbladder Bile Exposure
Boonmee, Frontiers in microbiology 2019 - “...LMRG_00151 LMRG_02887 , LMRG_00151- LMRG_00152 Hypothetical protein 3.08 0.00 LMRG_00152 Hypothetical protein 2.39 0.01 LMRG_00222 lmo0540 Penicillin-binding protein 2.04 0.00 LMRG_00293 lmo0610 Internalin-like protein 2.4 0.00 LMRG_00311 lmo0628 LMRG_00311-LMRG_00312 Hypothetical protein 4.56 0.00 LMRG_00334 lmo0647 Hypothetical protein 2.83 0.00 LMRG_00341 lmo0654 LMRG_00341-LMRG_00342 Hypothetical protein 3.11 0.00...”
- More
SCO7607 hydrolase from Streptomyces coelicolor A3(2)
32% identity, 53% coverage
- Cell wall hydrolases affect germination, vegetative growth, and sporulation in Streptomyces coelicolor
Haiser, Journal of bacteriology 2009 - “...SCO4847, SCO5467, SCO5660, SCO6131, SCO6489, SCO7050, SCO7607 SCO2835, SCO3368, SCO3949, SCO4082, SCO4132, SCO4561, SCO4672, SCO4798, SCO5623, SCO5839, SCO6773a...”
6kjjA / A0A0U1X4V6 Functional and structural insights into the unusual oxyanion hole-like geometry in macrolactin acyltransferase selective for dicarboxylic acyl donors (see paper)
26% identity, 78% coverage
- Ligand: 4-(2-acetamidoethylsulfanyl)-4-oxidanylidene-butanoic acid (6kjjA)
P177_RS01570 serine hydrolase domain-containing protein from Maribacter forsetii DSM 18668
22% identity, 82% coverage
- Genes for laminarin degradation are dispersed in the genomes of particle-associated Maribacter species
Kalenborn, Frontiers in microbiology 2024 - “...SusD, nutrient uptake outer membrane protein (P177_RS04600); SusC, TonB-linked outer membrane protein (P177_RS04595); GH3, -glucosidase (P177_RS01570); ExbB, proton channel family protein (P177_RS03305); ExbD, biopolymer transporter (P177_RS03320); ABC Transporter, ABC transporter substrate-binding (P177_RS00465), ABC transporter permease (P177RS_15985), and ABC transporter ATP-binding protein (P177_RS01135). Created with BioRender.com ....”
LMRG_00222 hypothetical protein from Listeria monocytogenes 10403S
LMOf6854_0581 penicillin-binding protein, putative from Listeria monocytogenes str. 1/2a F6854
26% identity, 47% coverage
- Listeria monocytogenes σA Is Sufficient to Survive Gallbladder Bile Exposure
Boonmee, Frontiers in microbiology 2019 - “...-value LMRG_00151 LMRG_02887 , LMRG_00151- LMRG_00152 Hypothetical protein 3.08 0.00 LMRG_00152 Hypothetical protein 2.39 0.01 LMRG_00222 lmo0540 Penicillin-binding protein 2.04 0.00 LMRG_00293 lmo0610 Internalin-like protein 2.4 0.00 LMRG_00311 lmo0628 LMRG_00311-LMRG_00312 Hypothetical protein 4.56 0.00 LMRG_00334 lmo0647 Hypothetical protein 2.83 0.00 LMRG_00341 lmo0654 LMRG_00341-LMRG_00342 Hypothetical protein 3.11...”
- In vivo transcriptional profiling of Listeria monocytogenes and mutagenesis identify new virulence factors involved in infection
Camejo, PLoS pathogens 2009 - “...lmo0257 lmo0257 unknown protein LMOf6854_0261.2 LMOf2365_0265 LMOh7858_0288 2,12 lmo0540 lmo0540 similar to penicillin-binding protein lin0544 LMOf6854_0581 LMOf2365_0569 LMOh7858_0598 3,77 3,96 2,29 Secreted/Surface lmo0604 lmo0604 similar to B subtilis YvlA protein lin0613 LMOf6854_0642.2 LMOf2365_0633 LMOh7858_0663.2 51,45 27,43 VirR lmo0788 lmo0788 unknown protein lin0781 LMOf6854_0832 LMOf2365_0804 LMOh7858_0842 60,06...”
LMOh7858_0598 penicillin-binding protein, putative from Listeria monocytogenes str. 4b H7858
27% identity, 47% coverage
- In vivo transcriptional profiling of Listeria monocytogenes and mutagenesis identify new virulence factors involved in infection
Camejo, PLoS pathogens 2009 - “...unknown protein LMOf6854_0261.2 LMOf2365_0265 LMOh7858_0288 2,12 lmo0540 lmo0540 similar to penicillin-binding protein lin0544 LMOf6854_0581 LMOf2365_0569 LMOh7858_0598 3,77 3,96 2,29 Secreted/Surface lmo0604 lmo0604 similar to B subtilis YvlA protein lin0613 LMOf6854_0642.2 LMOf2365_0633 LMOh7858_0663.2 51,45 27,43 VirR lmo0788 lmo0788 unknown protein lin0781 LMOf6854_0832 LMOf2365_0804 LMOh7858_0842 60,06 31,36 20,50...”
LMOf2365_0569 penicillin-binding protein, putative from Listeria monocytogenes str. 4b F2365
27% identity, 47% coverage
DEH18_05445 serine hydrolase domain-containing protein from Streptomyces sp. NHF165
33% identity, 65% coverage
lin0544 similar to penicillin-binding protein from Listeria innocua Clip11262
25% identity, 54% coverage
- In vivo transcriptional profiling of Listeria monocytogenes and mutagenesis identify new virulence factors involved in infection
Camejo, PLoS pathogens 2009 - “...similar to Bacillus anthracis encapsulation protein CapA lin0516 14,22 lmo0540 lmo0540 similar to penicillin-binding protein lin0544 3,78 3,97 2,28 iap lmo0582 P60 extracellular protein, invasion associated protein Iap lin0591 34,54 28,64 2,04 dltD lmo0971 DltD protein for D-alanine esterification of lipoteichoic acid and wall teichoic acid...”
- “...pgdA lmo0415 peptidoglycan N-acetylglucosamine deacetylase A lin0436 14,32 3,71 lmo0540 lmo0540 similar to penicillin-binding protein lin0544 3,78 3,97 2,28 iap lmo0582 P60 extracellular protein, invasion associated protein Iap lin0591 34,54 28,64 2,04 lmo1438 lmo1438 similar to penicillin-binding protein lin1477 3,56 lmo1521 lmo1521 similar to N-acetylmuramoyl-L-alanine amidase...”
MLCH_PENCI / Q8J0G0 ML-236A carboxylate methylbutanoyltransferase mlcH; Compactin biosynthesis protein H; EC 2.3.1.- from Penicillium citrinum (see 3 papers)
25% identity, 82% coverage
- function: Compactin diketide synthase; part of the gene cluster that mediates the biosynthesis of compactin, also known as mevastatin or ML- 236B, and which acts as a potent competitive inhibitor of HMG-CoA reductase (PubMed:12172803). Compactin biosynthesis is performed in two stages (PubMed:12172803). The first stage is catalyzed by the nonaketide synthase mlcA, which belongs to type I polyketide synthases and catalyzes the iterative nine-step formation of the polyketide (PubMed:12172803). This PKS stage is completed by the action of dehydrogenase mlcG, which catalyzes the NADPH-dependent reduction of the unsaturated tetra-, penta- and heptaketide intermediates that arise during the mlcA-mediated biosynthesis of the nonaketide chain and leads to dihydro-ML-236C carboxylate (PubMed:12172803). Covalently bound dihydro-ML-236C carboxylate is released from mlcA by the mlcF esterase (PubMed:12172803). Conversion of dihydro-ML-236C carboxylate into ML- 236A carboxylate is subsequently performed with the participation of molecular oxygen and P450 monoogygenase mlcC (PubMed:12172803). Finally, mlcH performs the conversion of ML-236A carboxylate to ML- 236B/compactin carboxylate through the addition of the side-chain diketide moiety produced by the diketide synthase mlcB (PubMed:12172803).
catalytic activity: ML-236A carboxylate + (S)-2-methylbutanoyl-[2-methylbutanoate polyketide synthase] = mevinic carboxylate + holo-[2-methylbutanoate polyketide synthase] (RHEA:57636)
PP1127, PP_1127 carboxylesterase from Pseudomonas putida KT2440
Q88NS7 Carboxylesterase from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440)
32% identity, 50% coverage
lovD / Q9Y7D1 monacolin J acid methylbutanoate transferase (EC 2.3.1.238) from Aspergillus terreus (see 4 papers)
LOVD_ASPTE / Q9Y7D1 Monacolin J acid methylbutanoyltransferase; Lovastatin biosynthesis cluster protein D; Lovastatin hydrolase; Simvastatin synthase LovD; SV synthase; EC 2.3.1.238 from Aspergillus terreus (see 16 papers)
Q9Y7D1 monacolin J acid methylbutanoate transferase (EC 2.3.1.238) from Aspergillus terreus (see 3 papers)
27% identity, 73% coverage
- function: Monacolin J acid methylbutanoyltransferase; part of the gene cluster that mediates the biosynthesis of lovastatin (also known as mevinolin, mevacor or monacolin K), a hypolipidemic inhibitor of (3S)- hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR) (PubMed:10334994, PubMed:12929390, PubMed:21495633). The first step in the biosynthesis of lovastatin is the production of dihydromonacolin L acid by the lovastatin nonaketide synthase lovB and the trans-acting enoyl reductase lovC via condensation of one acetyl-CoA unit and 8 malonyl-CoA units (PubMed:10334994, PubMed:10381407, PubMed:19900898, PubMed:22733743). Dihydromonacolin L acid is released from lovB by the thioesterase lovG (PubMed:23653178). Next, dihydromonacolin L acid is oxidized by the dihydromonacolin L monooxygenase lovA twice to form monacolin J acid (PubMed:12929390, PubMed:21495633). The 2- methylbutyrate moiety of lovastatin is synthesized by the lovastatin diketide synthase lovF via condensation of one acetyl-CoA unit and one malonyl-CoA unit (PubMed:19530726, PubMed:21069965). Finally, the covalent attachment of this moiety to monacolin J acid is catalyzed by the transesterase lovD to yield lovastatin (PubMed:10334994, PubMed:17113998, PubMed:18988191, PubMed:19875080, PubMed:24727900). LovD has broad substrate specificity and can also convert monacolin J to simvastatin using alpha-dimethylbutanoyl-S-methyl-3- mercaptopropionate (DMB-S-MMP) as the thioester acyl donor, and can also catalyze the reverse reaction and function as hydrolase in vitro (PubMed:19875080). LovD has much higher activity with LovF-bound 2- methylbutanoate than with free diketide substrates (PubMed:21069965).
catalytic activity: monacolin J carboxylate + (S)-2-methylbutanoyl-[2- methylbutanoate polyketide synthase] = lovastatin carboxylate + holo- [2-methylbutanoate polyketide synthase] (RHEA:43064)
subunit: Interacts with LovF.
disruption phenotype: Loss of lovastatin biosynthesis.
YP_755834 beta-lactamase from Maricaulis maris MCS10
34% identity, 45% coverage
WP_158102277 serine hydrolase domain-containing protein from Streptomyces cacaoi
33% identity, 65% coverage
3hlfA / Q9Y7D1 Simvastatin synthase (lovd), from aspergillus terreus, s5 mutant, s76a mutant, complex with simvastatin (see paper)
26% identity, 71% coverage
- Ligand: simvastatin acid (3hlfA)
LOVD_ASPTN / Q0C8M0 Monacolin J acid methylbutanoyltransferase; Lovastatin biosynthesis cluster protein D; Lovastatin hydrolase; Simvastatin synthase LovD; SV synthase; EC 2.3.1.238 from Aspergillus terreus (strain NIH 2624 / FGSC A1156) (see 16 papers)
27% identity, 73% coverage
- function: Monacolin J acid methylbutanoyltransferase; part of the gene cluster that mediates the biosynthesis of lovastatin (also known as mevinolin, mevacor or monacolin K), a hypolipidemic inhibitor of (3S)- hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR) (PubMed:10334994, PubMed:12929390, PubMed:21495633). The first step in the biosynthesis of lovastatin is the production of dihydromonacolin L acid by the lovastatin nonaketide synthase lovB and the trans-acting enoyl reductase lovC via condensation of one acetyl-CoA unit and 8 malonyl-CoA units (PubMed:10334994, PubMed:10381407, PubMed:19900898, PubMed:22733743). Dihydromonacolin L acid is released from lovB by the thioesterase lovG (PubMed:23653178). Next, dihydromonacolin L acid is oxidized by the dihydromonacolin L monooxygenase lovA twice to form monacolin J acid (PubMed:12929390, PubMed:21495633). The 2- methylbutyrate moiety of lovastatin is synthesized by the lovastatin diketide synthase lovF via condensation of one acetyl-CoA unit and one malonyl-CoA unit (PubMed:19530726, PubMed:21069965). Finally, the covalent attachment of this moiety to monacolin J acid is catalyzed by the transesterase lovD to yield lovastatin (PubMed:10334994, PubMed:17113998, PubMed:18988191, PubMed:19875080, PubMed:24727900). LovD has broad substrate specificity and can also convert monacolin J to simvastatin using alpha-dimethylbutanoyl-S-methyl-3- mercaptopropionate (DMB-S-MMP) as the thioester acyl donor, and can also catalyze the reverse reaction and function as hydrolase in vitro (PubMed:19875080). LovD has much higher activity with LovF-bound 2- methylbutanoate than with free diketide substrates (PubMed:21069965).
catalytic activity: monacolin J carboxylate + (S)-2-methylbutanoyl-[2- methylbutanoate polyketide synthase] = lovastatin carboxylate + holo- [2-methylbutanoate polyketide synthase] (RHEA:43064)
subunit: Interacts with LovF.
disruption phenotype: Loss of lovastatin biosynthesis.
SE2007 beta-lactamase from Staphylococcus epidermidis ATCC 12228
22% identity, 41% coverage
NP_509969 Beta-lactamase-related domain-containing protein from Caenorhabditis elegans
28% identity, 24% coverage
BC2729 Penicillin-binding protein from Bacillus cereus ATCC 14579
27% identity, 46% coverage
C9Z5I1 Putative secreted peptidase from Streptomyces scabiei (strain 87.22)
27% identity, 66% coverage
all2656 serine-type D-Ala-D-Ala carboxypeptidase from Nostoc sp. PCC 7120
25% identity, 72% coverage
- Structural Determinants and Their Role in Cyanobacterial Morphogenesis
Springstein, Life (Basel, Switzerland) 2020 - “...(WP_010995835.1) Cell wall synthesis PBP11 N/A N/A Alr0054 (WP_010994231.1) Cell wall synthesis PBP12 N/A N/A All2656 (WP_010996812.1) Cell wall synthesis Absent in cyanobacteria according to [ 28 , 86 , 88 ]: FtsA, FtsB, ZapA, ZapB, ZapC, ZipA, EzrA, FtsB, FtsL, FtsN (although FtsN was reported...”
FLT15_06190 serine hydrolase domain-containing protein from Paenibacillus thiaminolyticus
29% identity, 47% coverage
SCO2283 secreted esterase from Streptomyces coelicolor A3(2)
29% identity, 82% coverage
clbP / Q0P7K6 colibactin serine protease ClbP from Escherichia coli (see 4 papers)
UTI89_C2208 hypothetical protein from Escherichia coli UTI89
c2452 Hypothetical protein from Escherichia coli CFT073
29% identity, 41% coverage
WP_055716632 serine hydrolase domain-containing protein from Streptomyces torulosus
29% identity, 80% coverage
- Self-resistance in Streptomyces, with Special Reference to β-Lactam Antibiotics
Ogawara, Molecules (Basel, Switzerland) 2016 - “...is similar to serine hydrolases of Streptomyces olindensis (KDN73989), Streptomyces acidiscabies (WP_059045061), and Streptomyces torulosus (WP_055716632); and SSQG_00225 is related to PBPs of Streptomyces chartreusis (WP_010033556), Streptomyces iakyrus (WP_051814832), and Streptomyces pactum (WP_055421147). Therefore, all of these sequences are members of the -lactamase superfamily. The amino...”
Hbut_1035 Beta-lactamase class C from Hyperthermus butylicus DSM 5456
29% identity, 64% coverage
- Structure of the archaeal pab87 peptidase reveals a novel self-compartmentalizing protease family
Delfosse, PloS one 2009 - “...phori, Pyrococcus horikoshii PH0142/PH0143, cmaqu, Caldivirga maquilingensis Cmaq_0116, paero, Pyrobaculum aerophilum PAE3237, hbuty, Hyperthermus butylicus Hbut_1035, apern, Aeropyrum pernix Ap_0338, gprot, marine -proteobacterium HTCC2207. -helices (cylinders) and -strands (arrows) of P. abyssi Pab87 are aligned with the sequences and color coded according to Fig 1A (the...”
PAE3237 beta-lactamase-like protein from Pyrobaculum aerophilum str. IM2
26% identity, 69% coverage
- Structure of the archaeal pab87 peptidase reveals a novel self-compartmentalizing protease family
Delfosse, PloS one 2009 - “...pab87, Pyrococcus abyssi PAB0087, phori, Pyrococcus horikoshii PH0142/PH0143, cmaqu, Caldivirga maquilingensis Cmaq_0116, paero, Pyrobaculum aerophilum PAE3237, hbuty, Hyperthermus butylicus Hbut_1035, apern, Aeropyrum pernix Ap_0338, gprot, marine -proteobacterium HTCC2207. -helices (cylinders) and -strands (arrows) of P. abyssi Pab87 are aligned with the sequences and color coded according...”
Q8TR39 FmtA-like protein from Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)
27% identity, 33% coverage
WP_012480731 serine hydrolase domain-containing protein from Stenotrophomonas maltophilia
24% identity, 69% coverage
7mdfA / A0A0H2V8D3 Full-length s95a clbp bound to n-acyl-d-asparagine analog (see paper)
31% identity, 36% coverage
- Ligands: methyl n~2~-[4-(4-bromophenyl)butanoyl]-d-asparaginyl-l-alaninate; n~2~-[4-(4-bromophenyl)butanoyl]-d-asparagine; lauryl maltose neopentyl glycol; (2s)-2,3-dihydroxypropyl (9z)-hexadec-9-enoate (7mdfA)
AMIE_BACSU / O05213 N-acetylmuramyl-L-alanine amidase; EC 3.5.1.28 from Bacillus subtilis (strain 168) (see paper)
BSU01670 hypothetical protein from Bacillus subtilis subsp. subtilis str. 168
25% identity, 80% coverage
- function: Involved in muropeptide recycling. Hydrolyzes the amide bond between N-acetylmuramic acid (MurNAc) and the L-alanine residue of the stem peptide. Cannot hydrolyze muropeptides containing N- acetylglucosamine (GlcNAc) at the non-reducing end.
catalytic activity: Hydrolyzes the link between N-acetylmuramoyl residues and L- amino acid residues in certain cell-wall glycopeptides. - An exhaustive multiple knockout approach to understanding cell wall hydrolase function in Bacillus subtilis
Wilson, mBio 2023 - “...Y/KO O31773 BSU16950 sigM^*, sigV^*, sigW^, sigX^* 7.90 E-54 Similarity; pbpE ND amiE (ybbE) Y O05213 BSU01670 murR* 7.40 E-76 Does not hydrolyze PG ( 33 ) N-ACETYLGLUCOSAMIDASE/LYTIC TRANSGLYCOSYLASE Glyco_hydro_3 (PF01915) nagZ (yzbA, ybbD) Y P40406 BSU01660 murR* 6.50 E-131 Does not hydrolyze PG ( 33...”
- An Exhaustive Multiple Knockout Approach to Understanding Cell Wall Hydrolase Function inBacillus subtilis
Wilson, 2021 - An exhaustive multiple knockout approach to understanding cell wall hydrolase function in Bacillus subtilis
Wilson, mBio 2023 - “...O31773 BSU16950 sigM^*, sigV^*, sigW^, sigX^* 7.90 E-54 Similarity; pbpE ND amiE (ybbE) Y O05213 BSU01670 murR* 7.40 E-76 Does not hydrolyze PG ( 33 ) N-ACETYLGLUCOSAMIDASE/LYTIC TRANSGLYCOSYLASE Glyco_hydro_3 (PF01915) nagZ (yzbA, ybbD) Y P40406 BSU01660 murR* 6.50 E-131 Does not hydrolyze PG ( 33 )...”
- T-REx: Transcriptome analysis webserver for RNA-seq Expression data
de, BMC genomics 2015 - “...B_R61K-WT BSU01650 green CodY WT2 WT T1 C_R61H-WT BSU01660 green CodY F71Y1 A_F71Y T1 Null-WT BSU01670 green CodY F71Y2 A_F71Y T1 BSU01680 green CodY R61K1 B_R61K T2 etc R61K2 B_R61K T2 BSU03981 red CcpA R61H1 C_R61K T2 BSU03982 red CcpA R61H2 C_R61K T2 BSU03990 red CcpA...”
An15g05030, XP_001397035 uncharacterized protein from Aspergillus niger
25% identity, 92% coverage
BurJV3_3098 serine hydrolase domain-containing protein from Stenotrophomonas maltophilia JV3
25% identity, 46% coverage
- Comparative Genomics of Environmental and Clinical Stenotrophomonas maltophilia Strains with Different Antibiotic Resistance Profiles
Youenou, Genome biology and evolution 2015 - “...ALOG_130697 SMBUR_40170 AGRB_750011 SMD_3077 BurJV3_2956 Smal_2923 SmPIER_460297 Putative beta-lactamase Smlt_3652 SmBFE_320074 ALOG_130847 SMBUR_360003 AGRB_1350018 SMD_3220 BurJV3_3098 Smal_3068 SmPIER_500018 Putative metallo-beta-lactamase superfamily protein Smlt_3807 SmBFE_330125 ALOG_150056 SMBUR_200003 AGRB_1380014 SMD_3409 BurJV3_3251 Smal_3222 SmPIER_500189 Putative metallo-beta-lactamase superfamily protein Smlt_3991 SmBFE_370133 ALOG_160174 SMBUR_90113 AGRB_550016 - 1330023 SMD_3590 BurJV3_3439 Smal_3401 SmPIER_500370...”
NP_001018429 serine beta-lactamase-like protein LACTB, mitochondrial from Danio rerio
38% identity, 19% coverage
Smal_2553 beta-lactamase from Stenotrophomonas maltophilia R551-3
27% identity, 70% coverage
- Comparative Genomics of Environmental and Clinical Stenotrophomonas maltophilia Strains with Different Antibiotic Resistance Profiles
Youenou, Genome biology and evolution 2015 - “...SMBUR_190042 AGRB_1210006 SMD_1751 BurJV3_1601 Smal_1554 SmPIER_170243 Putative beta-lactamase Smlt_3114 SmBFE_280113 ALOG_130332 SMBUR_30157 AGRB_840024 SMD_2694 BurJV3_2565 Smal_2553 SmPIER_440066 Putative beta-lactamase Smlt_3495 SmBFE_300159 ALOG_130697 SMBUR_40170 AGRB_750011 SMD_3077 BurJV3_2956 Smal_2923 SmPIER_460297 Putative beta-lactamase Smlt_3652 SmBFE_320074 ALOG_130847 SMBUR_360003 AGRB_1350018 SMD_3220 BurJV3_3098 Smal_3068 SmPIER_500018 Putative metallo-beta-lactamase superfamily protein Smlt_3807 SmBFE_330125 ALOG_150056...”
M3B5M4 Peptidase from Streptomyces mobaraensis NBRC 13819 = DSM 40847
30% identity, 46% coverage
- Involvement of a Novel Class C Beta-Lactamase in the Transglutaminase Mediated Cross-Linking Cascade of Streptomyces mobaraensis DSM 40847
Zindel, PloS one 2016 - “...analyzed 22 peptides, covering about 45% of a putative protein sequence from S . mobaraensis (M3B5M4), showed similarities to the low molecular mass penicillin binding proteins (LMM-PBP) ( Fig 2 ). SignalP-4.1 prediction suggested truncation of the signal peptide by cleavage of the Ala32-Gln33 peptide bond...”
- “...the extracellular proteins from S . mobaraensis yielded an occurrence of the novel -lactamase Sml-1 (M3B5M4) in an early growth phase losing solubility by the addition of at least 50 vol% ethanol. The amino acid sequence assigned Sml-1 to the large family of low molecular mass...”
NP_107127 hypothetical protein from Mesorhizobium loti MAFF303099
29% identity, 32% coverage
Smal_3068 beta-lactamase from Stenotrophomonas maltophilia R551-3
26% identity, 44% coverage
- Comparative Genomics of Environmental and Clinical Stenotrophomonas maltophilia Strains with Different Antibiotic Resistance Profiles
Youenou, Genome biology and evolution 2015 - “...SMBUR_40170 AGRB_750011 SMD_3077 BurJV3_2956 Smal_2923 SmPIER_460297 Putative beta-lactamase Smlt_3652 SmBFE_320074 ALOG_130847 SMBUR_360003 AGRB_1350018 SMD_3220 BurJV3_3098 Smal_3068 SmPIER_500018 Putative metallo-beta-lactamase superfamily protein Smlt_3807 SmBFE_330125 ALOG_150056 SMBUR_200003 AGRB_1380014 SMD_3409 BurJV3_3251 Smal_3222 SmPIER_500189 Putative metallo-beta-lactamase superfamily protein Smlt_3991 SmBFE_370133 ALOG_160174 SMBUR_90113 AGRB_550016 - 1330023 SMD_3590 BurJV3_3439 Smal_3401 SmPIER_500370 Putative...”
PXO_04833 beta-lactamase from Xanthomonas oryzae pv. oryzae PXO99A
28% identity, 56% coverage
KCH_10480 serine hydrolase domain-containing protein from Kitasatospora cheerisanensis KCTC 2395
27% identity, 92% coverage
WP_059045061 serine hydrolase domain-containing protein from Streptomyces acidiscabies
26% identity, 88% coverage
- Self-resistance in Streptomyces, with Special Reference to β-Lactam Antibiotics
Ogawara, Molecules (Basel, Switzerland) 2016 - “...Streptomyces antibioticus (WP_059193915); SSQS_02491 is similar to serine hydrolases of Streptomyces olindensis (KDN73989), Streptomyces acidiscabies (WP_059045061), and Streptomyces torulosus (WP_055716632); and SSQG_00225 is related to PBPs of Streptomyces chartreusis (WP_010033556), Streptomyces iakyrus (WP_051814832), and Streptomyces pactum (WP_055421147). Therefore, all of these sequences are members of the...”
zmaM / C0JRE8 proto-zwittermicin A hydrolase from Bacillus cereus (see paper)
23% identity, 19% coverage
ACSP50_8214 serine hydrolase domain-containing protein from Actinoplanes sp. SE50/110
35% identity, 47% coverage
XF1621 beta-lactamase from Xylella fastidiosa 9a5c
26% identity, 44% coverage
YP_759849 putative esterase from Hyphomonas neptunium ATCC 15444
25% identity, 90% coverage
A5CNU5 Beta lactamase/penicillin-binding protein from Clavibacter michiganensis subsp. michiganensis (strain NCPPB 382)
CMM_0706 putative beta lactamase/penicillin-binding protein from Clavibacter michiganensis subsp. michiganensis NCPPB 382
34% identity, 31% coverage
- Proteomic analysis of endodontic infections by liquid chromatography-tandem mass spectrometry
Nandakumar, Oral microbiology and immunology 2009 - “...4 Nutrient binding, Transport A6L076 Penicillin-binding protein ( 2 ) B. vulgatus 5 Antibiotic resistance A5CNU5 Putative beta lactamase/penicillin-binding protein ( 1 ) Clavibacter michiganensis 4 Antibiotic resistance Q8FLL7 Putative virulence-associated protein ( 1 ) Corynebacterium sp 2 Virulence B2QEG9 Fibronectin-binding A domain protein ( 2...”
- A Proteomic Study of Clavibacter Michiganensis Subsp. Michiganensis Culture Supernatants
Hiery, Proteomes 2015 - “...CMM_0435 putative iron-siderophore ABC transporter substrate-binding protein +/+ CMM_0613 levanase +/+ CMM_0667 secreted phosphoesterase +/+ CMM_0706 putative penicillin binding protein +/ CMM_0792 putative sugar ABC transporter substrate-binding protein +/+ CMM_0795 putative extracellular nuclease/phosphatase +/+ CMM_0799 putative peptide ABC transporter substrate-binding protein +/+ CMM_0819 putative cell surface...”
- “...protein. From these protein, the putative siderophore interacting protein CMM_1129, the putative penicillin binding protein CMM_0706, the putative sortase CMM_0129, and the putative secreted protein CMM_0141 were exclusively found in M9 supernatants, while the putative sugar ABC transporter substrate binding protein CMM_2238 and the conserved secreted...”
LACTB_BOVIN / P83095 Serine beta-lactamase-like protein LACTB, mitochondrial; EC 3.4.-.- from Bos taurus (Bovine) (see paper)
20% identity, 59% coverage
- function: Mitochondrial serine protease that acts as a regulator of mitochondrial lipid metabolism. Acts by decreasing protein levels of PISD, a mitochondrial enzyme that converts phosphatidylserine (PtdSer) to phosphatidylethanolamine (PtdEtn), thereby affecting mitochondrial lipid metabolism. It is unclear whether it acts directly by mediating proteolysis of PISD or by mediating proteolysis of another lipid metabolism protein.
- The structure of the human LACTB filament reveals the mechanisms of assembly and membrane binding
Bennett, PLoS biology 2022 - “...macaque; Uniprot ID: F7EXQ6), Mus musculus (mouse; Uniprot ID: Q9EP89), Bos taurus (cow; Uniprot ID: P83095), Equus asinus (donkey; Uniprot ID: UPI001D03C0DD), Puma concolor (mountain lion; Uniprot ID: A0A6P6HFT1), and Lontra canadensis (river otter; Uniprot ID: UPI0013F34634) are aligned. (TIF) Click here for additional data file....”
- Characterization of paucibacillary ileal lesions in sheep with subclinical active infection by Mycobacterium avium subsp. paratuberculosis
Pisanu, Veterinary research 2018 - “...Platelet-activating factor acetylhydrolase 2 2.45 2.05 b 2.76 P09578 MT1C Metallothionein-1C 2.44 2.35 2.43 b P83095 LACTB Serine beta-lactamase-like protein LACTB 2.44 1.39 b 3.23 Q95JC7 SLC1A5 Neutral amino acid transporter B (0) 2.43 2.05 b 2.72 P55156 MTTP Microsomal triglyceride transfer protein large subunit 2.37...”
- Evolution of a family of metazoan active-site-serine enzymes from penicillin-binding proteins: a novel facet of the bacterial legacy
Peitsaro, BMC evolutionary biology 2008 - “...(Swiss-Prot: Q9EP89 ); Orycu, Oryctolagus cuniculus (Ensembl:ENSOCUP00000008608); Canfa, Canis familiaris (RefSeq:XP_544713); Bosta, Bos taurus (Swiss-Prot: P83095 ); Mondo, Monodelphis domestica (Ensembl:ENSMODP00000013893); Galga, Gallus gallus (Swiss-Prot: Q5ZK12 ); Xentr, Xenopus tropicalis (Ensembl:ENSXETG00000009720); Fugru, Fugu rubipes (Ensembl:SINFRUP00000138119); Oryla, Oryzia latipes (Ensembl:ENSORLP00000009787); Gasac, Gasterosteus aculeatus (Ensembl:ENSGACP00000014046); Danre, Danio rerio...”
- “...Used in This Study Species Accession number Database Proposed classification Reference EUKARYOTA Vertebrata Bos taurus P83095 Swiss-Prot LACTB [12] Bos taurus XP_601949 RefSeq LACTB-like protein 2 Canis familiaris XP_544713 RefSeq LACTB [47] Danio rerio NP_001018429 RefSeq LACTB Fugu rubipes SINFRUP00000138119 Ensembl LACTB Gallus gallus Q5ZK12 Swiss-Prot...”
Ccel_2389 cyclic peptide transporter from Clostridium cellulolyticum H10
22% identity, 19% coverage
MAP3162c hypothetical protein from Mycobacterium avium subsp. paratuberculosis str. k10
31% identity, 29% coverage
PD1157 beta-lactamase-like protein from Xylella fastidiosa Temecula1
25% identity, 44% coverage
Q9KAM0 Penicillin-binding protein from Halalkalibacterium halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125)
31% identity, 44% coverage
BurJV3_2565 serine hydrolase domain-containing protein from Stenotrophomonas maltophilia JV3
26% identity, 70% coverage
- Comparative Genomics of Environmental and Clinical Stenotrophomonas maltophilia Strains with Different Antibiotic Resistance Profiles
Youenou, Genome biology and evolution 2015 - “...ALOG_60526 SMBUR_190042 AGRB_1210006 SMD_1751 BurJV3_1601 Smal_1554 SmPIER_170243 Putative beta-lactamase Smlt_3114 SmBFE_280113 ALOG_130332 SMBUR_30157 AGRB_840024 SMD_2694 BurJV3_2565 Smal_2553 SmPIER_440066 Putative beta-lactamase Smlt_3495 SmBFE_300159 ALOG_130697 SMBUR_40170 AGRB_750011 SMD_3077 BurJV3_2956 Smal_2923 SmPIER_460297 Putative beta-lactamase Smlt_3652 SmBFE_320074 ALOG_130847 SMBUR_360003 AGRB_1350018 SMD_3220 BurJV3_3098 Smal_3068 SmPIER_500018 Putative metallo-beta-lactamase superfamily protein Smlt_3807 SmBFE_330125...”
D3ZFJ6 Lactamase, beta from Rattus norvegicus
21% identity, 60% coverage
- Alterations in mitochondrial protein glycosylation in myocardial ischaemia reperfusion injury.
Feng, Biochemistry and biophysics reports 2023 - “...M0R544 A0A140TAE0 A0A023ILN9 Q5XI97 P11951 Q4QRB4 O88637 D4ADD7 Q5RKI8 D3ZBS2 D4A8Y1 Q64560 A0A0G2K719 M0R5R0 Q7TQ70 D3ZFJ6 Q5M891 D3ZY96 Q6IFZ5 A0A096P6L8 A0A0H2UHP1 G3V928 C0JPT7 G3V640 A0A0G2K777 B0BMY7 B2RZ72 Q6P502 Q923V4 A0A0A0MY09 F7F389 G3V6P7 A0A0G2K0X4 Q4PP99 B5DF57 P25235 Q62714 Q9JJ49 A0A0G2JSV3 A0A0G2K014 Q9R1T3 D3Z9Z0 P09527 A0A096XKT9 Q91Y81 Q01177...”
KCH_10470 serine hydrolase domain-containing protein from Kitasatospora cheerisanensis KCTC 2395
30% identity, 50% coverage
PBPX_BACSU / O31773 Putative penicillin-binding protein PbpX from Bacillus subtilis (strain 168) (see 2 papers)
GTW28_09400 serine hydrolase domain-containing protein from Bacillus subtilis
BSU16950 penicillin-binding endopeptidase X from Bacillus subtilis subsp. subtilis str. 168
23% identity, 54% coverage
- disruption phenotype: Cells lacking this gene display no visible phenotype during vegetative growth or sporulation.
- A Novel and Efficient Phthalate Hydrolase from Acinetobacter sp. LUNF3: Molecular Cloning, Characterization and Catalytic Mechanism
Fan, Molecules (Basel, Switzerland) 2023 - “...DMP hydrolases Dialkyl PAE hydrolase / DMP Gene not identified Bacillus sp. [ 23 ] GTW28_09400 Dialkyl PAE hydrolase QHH20153.1 DBP, DIBP, DEHP II Bacillus subtilis BJQ0005 [ 20 ] GTW28_13725 Dialkyl PAE hydrolase QHH20954.1 DEHP V Bacillus subtilis BJQ0005 [ 20 ] HylD1 Dialkyl PAE...”
- An efficient phthalate ester-degrading Bacillus subtilis: Degradation kinetics, metabolic pathway, and catalytic mechanism of the key enzyme
Xu, Environmental pollution (Barking, Essex : 1987) 2021 (PubMed)- “...from the / hydrolase family were expressed. Enzymes GTW28_09400 and GTW28_13725 were capable of single ester bond hydrolysis of PAEs, while GTW28_17760...”
- An exhaustive multiple knockout approach to understanding cell wall hydrolase function in Bacillus subtilis
Wilson, mBio 2023 - “...Y/KO P32959 BSU34440 sigW^* 3.40 E-61 ( 32 ) SU ( 32 ) pbpX Y/KO O31773 BSU16950 sigM^*, sigV^*, sigW^, sigX^* 7.90 E-54 Similarity; pbpE ND amiE (ybbE) Y O05213 BSU01670 murR* 7.40 E-76 Does not hydrolyze PG ( 33 ) N-ACETYLGLUCOSAMIDASE/LYTIC TRANSGLYCOSYLASE Glyco_hydro_3 (PF01915) nagZ...”
- An Exhaustive Multiple Knockout Approach to Understanding Cell Wall Hydrolase Function inBacillus subtilis
Wilson, 2021 - An exhaustive multiple knockout approach to understanding cell wall hydrolase function in Bacillus subtilis
Wilson, mBio 2023 - “...P32959 BSU34440 sigW^* 3.40 E-61 ( 32 ) SU ( 32 ) pbpX Y/KO O31773 BSU16950 sigM^*, sigV^*, sigW^, sigX^* 7.90 E-54 Similarity; pbpE ND amiE (ybbE) Y O05213 BSU01670 murR* 7.40 E-76 Does not hydrolyze PG ( 33 ) N-ACETYLGLUCOSAMIDASE/LYTIC TRANSGLYCOSYLASE Glyco_hydro_3 (PF01915) nagZ (yzbA,...”
- Activation of the extracytoplasmic function σ factor σV by lysozyme
Ho, Molecular microbiology 2019 - “...poly(glycerophosphate) chain dltABCDE dltE BSU38540 D-alanine transfer from undecaprenol-phosphate to the poly(glycerophosphate) chain dltABCDE pbpX BSU16950 penicillin-binding protein X endopeptidase pbpX bcrC BSU36530 Undecaprenyl pyrophosphate phosphatase bcrC sasA (ywaC) BSU38480 ppGpp synthase* sasA abh BSU14480 Transition state regulator similar to AbrB* abh C. difficile pdaV CD630_15560...”
LSEI_1802 Beta-lactamase class C related penicillin binding protein from Lactobacillus casei ATCC 334
22% identity, 71% coverage
- Study of the cwaRS-ldcA Operon Coding a Two-Component System and a Putative L,D-Carboxypeptidase in Lactobacillus paracasei
Scornec, Frontiers in microbiology 2020 - “...ldcA mutant ( LSEI_0539 , LSEI_0810 , LSEI_0906 , LSEI_1089 , LSEI_1269-1272 , LSEI_1314 , LSEI_1802 , and LSEI_2570 ), meaning a ldcA -dependent regulation ( ldcA regulation influences the regulation of other genes), and (ii) those that are differently expressed in the M cwaR mutant...”
SA2230 hypothetical protein from Staphylococcus aureus subsp. aureus N315
Q7A3Q5 Protein flp from Staphylococcus aureus (strain N315)
SAV2441 fmtA-like protein from Staphylococcus aureus subsp. aureus Mu50
22% identity, 40% coverage
- What Happens in the Staphylococcal Nucleoid under Oxidative Stress?
Morikawa, Microorganisms 2019 - “...SA0124 capsular polysaccharide biosynthesis glycosyltransferase TuaA 1.61 / SA0120 SbnI, siderophore biosynthesis protein 1.54 / SA2230 fmtA-like protein/ beta lactamase 1.50 / SA0085 tRNA-dihydrouridine synthase 1.45 / SA0099 transmembrane efflux pump protein 1.43 vraA SA0533 long chain fatty acid-CoA ligase vraA 1.42 / SA2303 ABC transporter...”
- VraT/YvqF is required for methicillin resistance and activation of the VraSR regulon in Staphylococcus aureus
Boyle-Vavra, Antimicrobial agents and chemotherapy 2013 - “...resistance protein Hypothetical protein fmtA SAUSA300_2378 SAUSA300_2386 SA2221 SA2230 Kuroda et al. (9) Kuroda et al. (9) 3.4 4.2 4.5 SAUSA300_2445 SA2296...”
- In vitro activity of fusidic acid (CEM-102, sodium fusidate) against Staphylococcus aureus isolates from cystic fibrosis patients and its effect on the activities of tobramycin and amikacin against Pseudomonas aeruginosa and Burkholderia cepacia
McGhee, Antimicrobial agents and chemotherapy 2011 - “...The resistance frequencies of two S. aureus strains were 7.8 107 (SA2230) and 1.1 106 (SA2232) at 2 times the MIC and 4.6 107 (SA2230) and 4.1 107 (SA2232) at 4...”
- Characterizing the effects of inorganic acid and alkaline shock on the Staphylococcus aureus transcriptome and messenger RNA turnover
Anderson, FEMS immunology and medical microbiology 2010 - “...3.5 2.5 stable rpsP SA1254 30S ribosomal protein S16 sa_c10191s8871_a_at * 2.2 15 stable rpsQ SA2230 30S ribosomal protein S17 sa_c7144s6255_a_at * 4.1 5 stable rpsR SA0439 30S ribosomal protein S18 sa_c4876s4184_at * 2.7 5 stable rpsS SA2235 30S ribosomal protein S19 sa_c2719s2293_at * 2.0 15...”
- “...* 5.5 2.5 5 rpsP SA1254 30S ribosomal protein S16 sa_c10191s8871_a_at 3.9 15 15 rpsQ SA2230 30S ribosomal protein S17 sa_c7144s6255_a_at * 11.5 5 15 rpsR SA0439 30S ribosomal protein S18 sa_c4876s4184_at * 5.9 5 15 rpsS SA2235 30S ribosomal protein S19 sa_c2719s2293_at * 2.1 15...”
- Global gene expression in Staphylococcus aureus biofilms
Beenken, Journal of bacteriology 2004 - “...96.7% protein ID to MW2134 HP 95.6% protein ID SA2230 58.4% protein ID BH3950 transposase (10), Bacillus halodurans 49.1% protein ID MW2618 HP 87.6% protein ID...”
- The structure of the human LACTB filament reveals the mechanisms of assembly and membrane binding.
Bennett, PLoS biology 2022 - “...were aligned using Homo Sapiens LACTB (Uniprot ID: P83111), S . aureus ClbP (Uniprot ID: Q7A3Q5), P . abyssi Pab87 peptidase (Uniprot ID: Q9V2D6), A . halodurans penicillin-binding protein (Uniprot ID: Q9KAM0), and B . anthropi D-amino-acid amidase (Uniprot ID: Q9LCC8). (TIF) Click here for additional...”
- Multidrug resistance operon emrAB contributes for chromate and ampicillin co-resistance in a Staphylococcus strain isolated from refinery polluted river bank
Zhang, SpringerPlus 2016 - “...SAV1275 Metallo-beta-lactamase superfamily 0.98 0.80 SAV1504 Metallo-beta-lactamase 1.02 0.51 SAV1545 Metallo-beta-lactamase superfamily protein 0.74 1.02 SAV2441 Similar to beta-lactamase 1.42 0.44 pbpA Penicillin-binding protein 1 1.54 3.88 pbp2 Penicillin-binding protein 1A 2.10 2.02 pbp3 Penicillin-binding protein 3 1.05 2.71 pbp4 d -alanyl- d -alanine carboxypeptidase (penicillin-binding...”
- ClbP is a prototype of a peptidase subgroup involved in biosynthesis of nonribosomal peptides
Dubois, The Journal of biological chemistry 2011 - “...bpmyx0001_2150), and Staphylococcus aureus Mu50 (locus tag SAV2441) were amplified by PCR using primers listed in supplemental Table 3, purified,...”
ZMO0103 beta-lactamase from Zymomonas mobilis subsp. mobilis ZM4
28% identity, 38% coverage
- Synthetic Biology Facilitates Antimicrobials Discovery
Bai, Antibiotics (Basel, Switzerland) 2023 - “...technology. Six ampicillin-resistant genes are identified, and their related mutants are constructed. It shows that ZMO0103 is the key to ampicillin resistance in Z. mobilis and how other ampicillin-resistant genes may have a synergistic effect [ 11 ]. This study could lay the foundation for further...”
- Identification and Characterization of Genes Related to Ampicillin Antibiotic Resistance in Zymomonas mobilis
Geng, Antibiotics (Basel, Switzerland) 2022 - “...and examined genes associated with ampicillin resistance using CRISPR/Cas12abased genomeediting technology. Six ampicillinresistant genes ( ZMO0103 , ZMO0893 , ZMO1094 , ZMO1650 , ZMO1866 , and ZMO1967 ) were identified, and five mutant strains ZM40103, ZM40893, ZM41094, ZM41650, and ZM41866 were constructed. Additionally, a fourgene mutant...”
- “...shape. Moreover, the transformation efficiencies of ZM40103 and ZM4ARs were decreased. Our results indicate that ZMO0103 is the key to ampicillin resistance in Z. mobilis , and other ampicillinresistant genes may have a synergetic effect with it. In summary, this study identified and characterized genes related...”
- Functional characterization of a putative β-lactamase gene in the genome of Zymomonas mobilis
Rajnish, Biotechnology letters 2011 (PubMed)- “...gene and its regulation. A putative b-lactamase gene sequence (ZMO0103) in the genome of Z. mobilis showed a 55% amino acid sequence identity with class C...”
- “...presence of a putative b-lactamase encoded by the ORF ZMO0103. In this study, several bioinformatics tools were used to predict the functional properties of the...”
- Functional characterization of a putative β-lactamase gene in the genome of Zymomonas mobilis
Rajnish, Biotechnology letters 2011
FLP_STAAC / Q5HDB2 Protein flp; FmtA-like protein from Staphylococcus aureus (strain COL) (see paper)
SACOL2445 fmtA-like protein from Staphylococcus aureus subsp. aureus COL
22% identity, 40% coverage
MSMEG_4680 carboxylesterase, putative from Mycobacterium smegmatis str. MC2 155
31% identity, 49% coverage
BFF93_RS12085 serine hydrolase domain-containing protein from Elizabethkingia meningoseptica
26% identity, 49% coverage
NWMN_2340 fmtA-like beta-lactam resistance protein from Staphylococcus aureus subsp. aureus str. Newman
SAUSA300_2386 beta-lactamase from Staphylococcus aureus subsp. aureus USA300_FPR3757
22% identity, 40% coverage
- Essential Fitness Repertoire of Staphylococcus aureus during Co-infection with Acinetobacter baumannii In Vivo
Li, mSystems 2022 - “...diverse substrates. Note that 5 genes with unknown substrate specificity, including NWMN_1203, NWMN_1758, NWMN_0251, NWMN_0654, NWMN_2340, were not drawn in the diagram. Validation of candidate fitness factors required in type-specific infection. To verify the accuracy of the genome-scale Tn-seq analyses, 3 individual genes, including the mono-infection-unique...”
- Identification of Methicillin-Resistant Staphylococcus aureus (MRSA) Genetic Factors Involved in Human Endothelial Cells Damage, an Important Phenotype Correlated with Persistent Endovascular Infection
Xiao, Antibiotics (Basel, Switzerland) 2022 - “...29.37 4.04 SAUSA300_1797 hypothetical conserved hypothetical protein 29.37 4.79 SAUSA300_1759 hypothetical hypothetical protein 29.25 2.85 SAUSA300_2386 hypothetical beta-lactamase 29.13 1.62 SAUSA300_2434 hypothetical transporter protein 29.13 5.28 SAUSA300_2037 hypothetical ATP-dependent RNA helicase 28.67 8.90 SAUSA300_1654 hypothetical proline dipeptidase 28.46 4.20 SAUSA300_0615 hypothetical putative monovalent cation/H+ antiporter subunit...”
- VraT/YvqF is required for methicillin resistance and activation of the VraSR regulon in Staphylococcus aureus
Boyle-Vavra, Antimicrobial agents and chemotherapy 2013 - “...tcaA, teicoplanin resistance protein Hypothetical protein fmtA SAUSA300_2378 SAUSA300_2386 SA2221 SA2230 Kuroda et al. (9) Kuroda et al. (9) 3.4 4.2 4.5...”
TRNA_RS23130 serine hydrolase from Bacillus licheniformis DSM 13 = ATCC 14580
26% identity, 35% coverage
- Exploitation of ammonia-inducible promoters for enzyme overexpression in Bacillus licheniformis
Shen, Journal of industrial microbiology & biotechnology 2021 - “...amyL , encoding an -amylase, was shown. TRNA_RS39005 ( copA ), TRNA_RS41250 ( sacA ), TRNA_RS23130 ( pdpX ), TRNA_RS42535 ( ald ), TRNA_RS31535 ( plp ), and TRNA_RS23240 ( dfp ) were selected out of the 859 upregulated genes and each showed higher transcription levels...”
- “...4.82 copA TRNA_RS41245, TRNA_RS41250, TRNA_RS41255 TRNA_RS41250 Operon TRNA_RS31535, TRNA_RS31540 304.15 5,168.93 4.08 sacA TRNA_RS42535 Operon TRNA_RS23130 37.49 2,115.45 5.82 ald TRNA_RS23130 Gene TRNA_RS42535 246.39 4,651.72 4.3 pdbX TRNA_RS31535 Gene TRNA_RS23240 137.77 4,263.28 4.91 plp TRNA_RS23240 Gene TRNA_RS31535, TRNA_RS31540 172.8 2,005.56 3.54 dfp Promoter Structure and Sequence...”
Rv2463 PROBABLE ESTERASE/LIPASE LIPP from Mycobacterium tuberculosis H37Rv
29% identity, 56% coverage
- The DosR regulon of <i>Mycobacterium avium</i> and adaptation to hypoxia
Belardinelli, Frontiers in cellular and infection microbiology 2025 - “...No B6K05_008015 MAV_1709 Class A beta-lactamase-related serine hydrolase No -0.31 -4.15 -4.01 -4.23 MAB_0853 No Rv2463 (lipP) No B6K05_008020 MAV_1710 tRNA-Gly No -0.13 -2.74 -3.66 -3.31 MAB_t5025c No glyV No B6K05_009065 MAV_2101 Aldehyde dehydrogenase No 0.13 -3.66 -3.71 -3.59 MAB_4484 No Rv0223c No B6K05_009340 MAV_5024 DEAD/DEAH...”
- Neddylation Regulation of Immune Responses
Mao, Research (Washington, D.C.) 2023 - “...NEDD8 expression within DCs, coupled with an elevation in SENP8 levels. The M. tb antigens Rv2463 and Rv3416 stimulate the binding between NEDD8 and CUL-1. Interestingly, knockdown of NEDD8, CUL-1, or CUL-5 increased the ROS levels induced by Rv2463, and promoted phagolysosome fusion in infected DCs,...”
- Multiple genetic paths including massive gene amplification allow Mycobacterium tuberculosis to overcome loss of ESX-3 secretion system substrates
Wang, Proceedings of the National Academy of Sciences of the United States of America 2022 - “...of integrase - hsp 60 promoter- aph from the pMV361 vector inserted between lipP ( rv2463 ) and tig ( rv2462c ) as revealed by Nanopore sequencing and annotation is shown in gray on the assembly. ( B ) Mapping of the Illumina reads to the...”
- Innate immunity in tuberculosis: host defense vs pathogen evasion
Liu, Cellular & molecular immunology 2017 - “...data-track-action="reference anchor" data-track-label=link>40</a></sup> Furthermore, Mtb Rv2463 and Rv3416 can downregulate the expression of neural precursor...”
- Regulation of L-type Voltage Gated Calcium Channel CACNA1S in Macrophages upon Mycobacterium tuberculosis Infection
Antony, PloS one 2015 - “...report, we investigated mechanisms and key players that regulate the surface expression of VGCC-CACNA1S by Rv2463 and M . tb infection in macrophages. Our earlier work identified Rv2463 to be expressed at early times post infection in macrophages that induced suppressor responses to dendritic cells and...”
- “...be similar in both human and mouse [ 41 ]. We chose to work with Rv2463, an antigen that we identified in our earlier study [ 42 ]. Stimulation of dendritic cells (DCs) and macrophages with Rv2463 mediated suppressor responses including downregulation of IL-12p40 from dendritic...”
- Mutation of Rv2887, a marR-like gene, confers Mycobacterium tuberculosis resistance to an imidazopyridine-based agent
Winglee, Antimicrobial agents and chemotherapy 2015 - “...1.38E12 1.96E14 Possible benzoquinone methyltransferase (methylase) Rv0559c Rv2463 Rv2886c 3.63 1.59 2.34 4.70E11 0.01 0.03 0.05 0.35 3.28 3.38E13 0.02 1.00...”
- “...negatively regulates the transcription of Rv0558, Rv0559c, Rv0560c, and Rv2463. Rv2463, also known as lipP, encodes a lipase that has weak homology to E. coli...”
- Suppressive role of neddylation in dendritic cells during Mycobacterium tuberculosis infection
Chadha, Tuberculosis (Edinburgh, Scotland) 2015 (PubMed)- “...we show that stimulation of DCs with M. tb antigens Rv2463 and Rv3416 as well as infection with live M. tb modulates the expression levels of key proteins...”
- “...S1472-9792(15)20775-5 10.1016/j.tube.2015.05.014 Elsevier Ltd Figure 1 Rv2463, Rv3416 and live M. tb infection modulate expression of neddylation pathway...”
- DNA methylation impacts gene expression and ensures hypoxic survival of Mycobacterium tuberculosis
Shell, PLoS pathogens 2013 - “...0.59 0.07 0.038 1.0 1067 tRNA-pro proU 0.15 1.91 0.00034 0.24 2480 or 6630 e Rv2463 lipP 0.016 2.62 8.1810 9 1.710 5 2544 or 476 e tRNA-gly f glyV 0.0089 2.66 2.5410 7 0.00035 2430 a ANOVA. b Method of Benjamini and Hochberg. c Distance...”
- More
S4N406 Putative D-alanyl-D-alanine carboxypeptidase from Streptomyces afghaniensis 772
33% identity, 48% coverage
PXO_01660 beta-lactamase from Xanthomonas oryzae pv. oryzae PXO99A
PXO_RS14730 serine hydrolase domain-containing protein from Xanthomonas oryzae pv. oryzae PXO99A
28% identity, 43% coverage
MSMEG_1586 beta-lactamase from Mycobacterium smegmatis str. MC2 155
28% identity, 52% coverage
Q9LCC8 serine-type D-Ala-D-Ala carboxypeptidase (EC 3.4.16.4) from Brucella anthropi (see paper)
26% identity, 47% coverage
BN159_7932 serine hydrolase domain-containing protein from Streptomyces davaonensis JCM 4913
29% identity, 51% coverage
- Self-resistance in Streptomyces, with Special Reference to β-Lactam Antibiotics
Ogawara, Molecules (Basel, Switzerland) 2016 - “...in Table 3 , with exceptions of SHJG_8639 (YP_006249777), SHJG_2828 (YP_006243975), SSCG_03668 (ZP_05006222), SRIM_31085 (ELQ79325), BN159_7932 (YP_007526438), SSQG_02491 (ZP_07303604), and SSQG_00225 (ZP_07301338). However, the N-terminal sequences of SHJG_2828, SSCG_03668, SRIM_31085, SSQG_02491 and SSQG_00225 are missing, so the numbers of amino acid residues are too short to...”
2dnsA / Q9LCC8 The crystal structure of d-amino acid amidase from ochrobactrum anthropi sv3 complexed with d-phenylalanine (see paper)
26% identity, 47% coverage
- Ligand: d-phenylalanine (2dnsA)
XAC3057 beta-lactamase from Xanthomonas axonopodis pv. citri str. 306
28% identity, 43% coverage
sll1167 penicillin-binding protein 4 from Synechocystis sp. PCC 6803
27% identity, 50% coverage
- Identification of the key functional genes in salt-stress tolerance of Cyanobacterium Phormidium tenue using in silico analysis
Shahbazi, 3 Biotech 2021 - “...mrgA, slr1894 cruE, sll0154 lspA, slr1366 pbpD, sll1167 fdp, slr0952 cbiO, sll0385 putative peptidase, sll1369 nrsB, slr0793 sll0558 SynAco, sll1541 chrR,...”
- “...slr1604 rfrP, slr0967 slr1738, perR pbpD, sll1167 hypothetical protein, sll0528 hypothetical protein, slr1686 hypothetical protein, sll1512, psbW, slr1739...”
- Structural Determinants and Their Role in Cyanobacterial Morphogenesis
Springstein, Life (Basel, Switzerland) 2020 - “...(BAB77025.1) Cell wall synthesis PBP5 Slr0646 (WP_010873596.1) Synpcc7942_1934 (ABB57964.1) Alr5324 (WP_010999448.1) Cell wall synthesis PBP6 Sll1167 (WP_010872913.1) Synpcc7942_0482 (WP_011243349.1) All2981 (WP_010997132.1) Cell wall synthesis PBP7 Slr1924 (WP_010873199.1) N/A Alr5045 (WP_010999171.1) Cell wall synthesis PBP8 Slr0804 (WP_010872730.1) N/A Alr0718 (WP_010994893.1) g Cell wall synthesis PBP9 N/A N/A...”
- Role of Rbp1 in the acquired chill-light tolerance of cyanobacteria
Tan, Journal of bacteriology 2011 - “...California, Berkeley sll0219 sll0517 sll0662 sll0781 sll1091 sll1167 sll1476 sll1926 slr0447 slr1136 slr1137 slr1138 slr1452 slr1453 slr1764 ssl1263 ssr1386...”
- Characterization of the Synechocystis strain PCC 6803 penicillin-binding proteins and cytokinetic proteins FtsQ and FtsW and their network of interactions with ZipN
Marbouty, Journal of bacteriology 2009 - “...sll1434 sll1833 PBP5 PBP8 PBP6 PBP7 slr0646 slr0804 sll1167 slr1924 Proposed in reference 22. Gene identifier in CyanoBase. inserted in the Synechocystis...”
- DNA microarray analysis of redox-responsive genes in the genome of the cyanobacterium Synechocystis sp. strain PCC 6803
Hihara, Journal of bacteriology 2003 - “...sll0789, copR, rre34 sll0790, hik31 sll0846 sll1159 sll1167, pbp, penicillin-binding protein 4 sll1450, nrtA, nitrate transport protein NrtA sll1451, nrtB,...”
- Global gene expression profiles of the cyanobacterium Synechocystis sp. strain PCC 6803 in response to irradiation with UV-B and white light
Huang, Journal of bacteriology 2002 - “...Rare lipoprotein A Penicillin-binding protein 4 rlpA pbp slr0423 sll1167 0.9 0.16 2.16 0.34 0.84 0.29 1.26 0.39 0.72 0.34 2.08 0.2 3.79 0.92 1.01 0.27 Cellular...”
- pbpB, a gene coding for a putative penicillin-binding protein, is required for aerobic nitrogen fixation in the cyanobacterium Anabaena sp. strain PCC7120
Lázaro, Journal of bacteriology 2001 - “...(slr1710), FtsI (sll1833), DacB (slr0804 and slr0646), PBP4 (sll1167), and slr1924 of Synechocystis sp. strain PCC6803; and the putative PBP of our study. We...”
- “...coli and to the presumptive products of gene pbp (sll1167) and slr1924 of Synechocystis. As already shown in Table 3, PBP9 does not have a transmembrane region...”
NP_496176 Beta-lactamase domain-containing protein 2 from Caenorhabditis elegans
Q09621 Beta-lactamase domain-containing protein 2 from Caenorhabditis elegans
24% identity, 79% coverage
MAB_0853 Probable esterase/lipase LipP from Mycobacterium abscessus ATCC 19977
28% identity, 49% coverage
- The DosR regulon of <i>Mycobacterium avium</i> and adaptation to hypoxia
Belardinelli, Frontiers in cellular and infection microbiology 2025 - “...-3.66 No No B6K05_008015 MAV_1709 Class A beta-lactamase-related serine hydrolase No -0.31 -4.15 -4.01 -4.23 MAB_0853 No Rv2463 (lipP) No B6K05_008020 MAV_1710 tRNA-Gly No -0.13 -2.74 -3.66 -3.31 MAB_t5025c No glyV No B6K05_009065 MAV_2101 Aldehyde dehydrogenase No 0.13 -3.66 -3.71 -3.59 MAB_4484 No Rv0223c No B6K05_009340...”
M4NG93 MlrB from Sphingomonas sp. USTB-05
30% identity, 36% coverage
- Enzymatic mechanism of MlrB for catalyzing linearized microcystins by Sphingopyxis sp. USTB-05
Teng, Frontiers in microbiology 2024 - “...related to MlrB. ID Organism Length (AA) Molecular weight (kD) Theoretical isoelectric point Instability index M4NG93 Sphingomonas sp. USTB-05 541 59.08 6.78 24.85 A0A1W7MBK5 Novosphingobium sp. MD-1 541 59.09 8.77 23.57 A0A3B7DRB8 Novosphingobium sp. THN1 541 59.09 8.91 23.25 A0A141R8A3 Sphingomonas sp. ACM-3962 541 59.14 8.31...”
- “...of MlrB. (A) The model constructed by phyre2. (B) The model constructed by Alphafold (accessions: M4NG93). Multiple sequence comparison of the template enzyme DAP (1ei5, chain A) with MlrB (AGG86526.1) is shown in Figure 2 . The alpha helix is represented by the green helix, the...”
YP_618034 beta-lactamase from Sphingopyxis alaskensis RB2256
32% identity, 38% coverage
SSA_1371 FmtA-like protein, putative from Streptococcus sanguinis SK36
26% identity, 34% coverage
2qmiF / Q9V2D6 Structure of the octameric penicillin-binding protein homologue from pyrococcus abyssi (see paper)
Q9V2D6 Beta-lactamase-like protein from Pyrococcus abyssi (strain GE5 / Orsay)
PAB0087 related BETA-LACTAMASE PRECURSOR (PENICILLIN-BINDING PROTEIN) from Pyrococcus abyssi GE5
22% identity, 69% coverage
- Ligand: 10-((2r)-2-hydroxypropyl)-1,4,7,10-tetraazacyclododecane 1,4,7-triacetic acid (2qmiF)
- The structure of the human LACTB filament reveals the mechanisms of assembly and membrane binding.
Bennett, PLoS biology 2022 - “...P83111), S . aureus ClbP (Uniprot ID: Q7A3Q5), P . abyssi Pab87 peptidase (Uniprot ID: Q9V2D6), A . halodurans penicillin-binding protein (Uniprot ID: Q9KAM0), and B . anthropi D-amino-acid amidase (Uniprot ID: Q9LCC8). (TIF) Click here for additional data file. S5 Fig Structure of LACTB catalytic...”
- Proteolytic systems of archaea: slicing, dicing, and mincing in the extreme
Maupin-Furlow, Emerging topics in life sciences 2018 - “...PH1704 (O59413) [ 88 , 89 ] CubicO peptidase [S12, -] Intracellular 2qmi Pa Pab87 (Q9V2D6) [ 91 ] Prolidase (PepQ) [M42B, EC: 3.4.13.9] Intracellular 1pv9 Pf PepQ (P81535) [ 92 , 93 ] Prolyl endopeptidase (PEPase) [S9A, EC 3.4.21.26] Intracellular 5t88 Pf (Q51714) [ 94...”
- Structure of the archaeal pab87 peptidase reveals a novel self-compartmentalizing protease family
Delfosse, PloS one 2009 - “...Alignment of CubicO protease family members. The sequence names are as following: pab87, Pyrococcus abyssi PAB0087, phori, Pyrococcus horikoshii PH0142/PH0143, cmaqu, Caldivirga maquilingensis Cmaq_0116, paero, Pyrobaculum aerophilum PAE3237, hbuty, Hyperthermus butylicus Hbut_1035, apern, Aeropyrum pernix Ap_0338, gprot, marine -proteobacterium HTCC2207. -helices (cylinders) and -strands (arrows) of...”
- Cloning, purification, crystallization and preliminary crystallographic analysis of a penicillin-binding protein homologue from Pyrococcus abyssi
Delfosse, Acta crystallographica. Section F, Structural biology and crystallization communications 2005 - “...hyperthermophilic archaeon Pyrococcus abyssi contains a gene (pab0087) encoding a penicillin-binding protein (PBP) homologue. This sequence consists of 447...”
- “...low-molecular-weight PBPs and class C -lactamases. The Pab0087 protein was overexpressed, purified and crystallized. Diffraction data from two different crystal...”
Q06317 Penicillin-binding protein 4 from Amycolatopsis lactamdurans
31% identity, 46% coverage
XCC2873 beta-lactamase from Xanthomonas campestris pv. campestris str. ATCC 33913
27% identity, 42% coverage
P71988 Possible penicillin-binding protein from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
Rv1730c POSSIBLE PENICILLIN-BINDING PROTEIN from Mycobacterium tuberculosis H37Rv
25% identity, 72% coverage
- Identification and Quantification of S-Sulfenylation Proteome of Mycobacterium tuberculosis under Oxidative Stress
Lu, Microbiology spectrum 2023 - “...levels of cell wall synthesis related glycolipid sulfotransferase ( P9WGB9 , Rv1373 ), penicillin-binding protein P71988 ( Rv1730c ), and penicillin-binding lipoprotein O33346 ( Rv2864c ) were all increased. The SOH modification Cas10 ( P71629 , Rv2823c ), and Csm6 ( P71635 , Rv2818c ) belonging...”
- <i>Mycobacterium abscessus</i> Virulence Factors: An Overview of Un-Explored Therapeutic Options
Cocorullo, International journal of molecular sciences 2025 - “...been evaluated against Mab , too. Experimental data suggests that CyCs inhibit two putative -lactamases Rv1730c and Rv1367c, the serine hydrolase Rv0554, five members of the lipase family Lip of which Rv1399c and Rv3203 have been characterized as LipH and LipV respectively, six enzymes with lipolytic...”
- Pangenome-wide association study reveals the selective absence of CRISPR genes (Rv2816c-19c) in drug-resistant Mycobacterium tuberculosis
Bhalla, Microbiology spectrum 2024 - “...MoeY 1.40 Rv2016 Hypothetical protein 1.39 Rv3383c Polyprenyl synthetase IdsB 1.32 Rv1371 Membrane protein 1.31 Rv1730c Penicillin-binding protein 1.28 Rv2318 Sugar ABC transporter substrate-binding lipoprotein UspC 1.27 Rv0840c Proline iminopeptidase 1.13 Rv0968 Hypothetical protein 1.05 Rv1500 Glycosyltransferase 1.02 Rv2231A Ribonuclease VapC16 1.00 Rv0648 Alpha-mannosidase 0.98 Rv1255c...”
- Breaking barriers: The potential of nanosystems in antituberculosis therapy
Carnero, Bioactive materials 2024 - “...source, which indicates that specific penicillin-binding proteins (PonA1, PonA2, DacB, DacB1, DacB2, PbpA, PbpB, Rv1367, Rv1730c, Rv2864c) might outperform BlaC in neutralizing beta-lactams. Furthermore, MTB possesses sophisticated defense systems that bolster its survival odds. Prominent among these are efflux pumpsprotein structures nestled in the cell membrane...”
- Identification and Quantification of S-Sulfenylation Proteome of Mycobacterium tuberculosis under Oxidative Stress
Lu, Microbiology spectrum 2023 - “...cell wall synthesis related glycolipid sulfotransferase ( P9WGB9 , Rv1373 ), penicillin-binding protein P71988 ( Rv1730c ), and penicillin-binding lipoprotein O33346 ( Rv2864c ) were all increased. The SOH modification Cas10 ( P71629 , Rv2823c ), and Csm6 ( P71635 , Rv2818c ) belonging to CRISPR...”
- Penicillin Binding Proteins and β-Lactamases of Mycobacterium tuberculosis: Reexamination of the Historical Paradigm
Kumar, mSphere 2022 - “...Rv2864c, a putative PBP, were comparably more resistant to inhibition by all -lactam subclasses. Additionally, Rv1730c exhibited low affinity to most -lactams. Based on these findings, we conclude that in M. tuberculosis , BlaC is not the only source of inactivation of -lactams. Therefore, the historical...”
- “...hydrolysis of this -lactam subclass was attributable to this single protein. To our surprise, Rv1367c, Rv1730c, and Rv2864c, which are annotated to exhibit PBP-like function ( 36 ), and are not known to exhibit -lactamase activities, inactivated carbapenems at a rate comparable (14% each) to that...”
- Identification of drivers of mycobacterial resistance to peptidoglycan synthesis inhibitors
Olivença, Frontiers in microbiology 2022 - “...from TSS of MSMEG_6319 Penicillin-binding protein, transpeptidase (Rv2864c) 3/3 6,853,426 snp A1391C Asp464Ala MSMEG_6805 Beta-lactamase (Rv1730c) EMB R AMX/CLA R 3/3 351,880 snp A191C Glu64Ala MSMEG_0317 Conserved hypothetical protein Rv0227c 3/3 3,413,225 snp T785A Ile262Asn MSMEG_3335 Transcript. Regulator, IclR family protein (Rv2989) 3/3 5,795,546 ins G>GCC...”
- “...MEM/CLA R isolates additionally possessed a mutation in MSMEG_6805 , a beta-lactamase gene orthologue of Rv1730c and annotated as encoding a possible PBP in Mtb , while EMB R MEM/CLA R mutants had an intergenic mutation upstream the gap gene, encoding for a glyceraldehyde-3-phosphate dehydrogenase. Other...”
- Identification of cell wall synthesis inhibitors active against Mycobacterium tuberculosis by competitive activity-based protein profiling
Li, Cell chemical biology 2022 - “...and the lipase Rv3802c ( Parker etal., 2009 ). In addition, the predicted penicillin-binding protein Rv1730c likely maintains peptidoglycan and thus sustains cell wall integrity. Table 2 Prioritized serine hydrolase targets of AA692 identified by competitive activity-based protein profiling. See also FigureS4 and Table S1. Summary...”
- “...hypoxia EZ120 10 Lalistat 10 CyC 17 11 THL 12 AmiB2 Rv1263 putative amidase 7,8 Rv1730c Rv1730c possible penicillin-binding protein 1 LipC Rv0220 esterase Rv3591c Rv3591c probable hydrolase 7 FbpA Rv3804c mycolyltransferase 1,5 7 Rv3802c Rv3802c lipase 1,2,3,4 8 FpbB Rv1886c mycolyltransferase 7 Rv2627c Rv2627c alpha-beta...”
- Gene evolutionary trajectories in Mycobacterium tuberculosis reveal temporal signs of selection
Chiner-Oms, Proceedings of the National Academy of Sciences of the United States of America 2022 - “...A ). Importantly, we also identified less wellstudied genes with a similar profile, including Rv0552, Rv1730c, alr (Rv3423c), eccC4 (Rv3447), eccCa1 (Rv3870) ( Fig. 3 A ), and Rv3883c ( mycP1 ). To formally evaluate their association to different drugs, we generated computational models ( Materials...”
- “...significant association with resistant phenotypes for second-line drugs ( Fig. 3 B ): for example, Rv1730c associated with first-line treatments (Wald test, P value = 0.04 for streptomycin and P value = 1e-4 for ethambutol + pyrazinamide), treY associated with aminoglycoside injectable agents (Wald test, P...”
- More
SC1_04306 serine hydrolase domain-containing protein from Sphingopyxis sp. C-1
29% identity, 36% coverage
- Whole-Genome Sequence of the Microcystin-Degrading Bacterium Sphingopyxis sp. Strain C-1
Okano, Genome announcements 2015 - “...encoding MlrB, MlrD, MlrA, and MlrC of Sphingopyxis sp. strain C-1 were designated with locus_tag SC1_04306 to SC1_04309 (1352105 to 1356054) on BBRO01000002. In addition, 2 adjacent genes, locus_tag SC1_04305 of 1,140bp and locus_tag SC1_04304 of 1,461bp, encoding peptide-modifying dipeptidase and d -aminoacylase, respectively, were identified...”
Q5ZK12 Beta-lactamase-related domain-containing protein from Gallus gallus
33% identity, 20% coverage
- Evolution of a family of metazoan active-site-serine enzymes from penicillin-binding proteins: a novel facet of the bacterial legacy
Peitsaro, BMC evolutionary biology 2008 - “...(RefSeq:XP_544713); Bosta, Bos taurus (Swiss-Prot: P83095 ); Mondo, Monodelphis domestica (Ensembl:ENSMODP00000013893); Galga, Gallus gallus (Swiss-Prot: Q5ZK12 ); Xentr, Xenopus tropicalis (Ensembl:ENSXETG00000009720); Fugru, Fugu rubipes (Ensembl:SINFRUP00000138119); Oryla, Oryzia latipes (Ensembl:ENSORLP00000009787); Gasac, Gasterosteus aculeatus (Ensembl:ENSGACP00000014046); Danre, Danio rerio (RefSeq:NP_001018429); Strpu, Strongylocentrotus purpuratus (RefSeq:XP_789736); Cioin, Ciona intestinalis (Ensembl:ENSCING00000006798); Schja,...”
- “...RefSeq LACTB [47] Danio rerio NP_001018429 RefSeq LACTB Fugu rubipes SINFRUP00000138119 Ensembl LACTB Gallus gallus Q5ZK12 Swiss-Prot LACTB [48] Gallus gallus XP_001232283 RefSeq LACTB-like protein 2 [48] Gasterosteus aculeatus ENSGACP00000014046 Ensembl LACTB Homo sapiens P83111 Swiss-Prot LACTB [9] Homo sapiens XP_934300 RefSeq LACTB-like protein 2 Macaca...”
FLP_STAA8 / Q2FVH6 Protein flp; FmtA-like protein from Staphylococcus aureus (strain NCTC 8325 / PS 47) (see paper)
FLP_STAAU / Q9KJ74 Protein flp; FmtA-like protein from Staphylococcus aureus (see paper)
Q9KJ74 teichoic acid D-alanine hydrolase (EC 3.1.1.103) from Staphylococcus aureus (see paper)
22% identity, 40% coverage
- function: Its precise function is unknown. Has no penicillin-binding activity and is not involved in methicillin resistance.
- function: Its precise function is unknown. Has no penicillin-binding activity and is not involved in methicillin resistance.
LSA0648 Putative penicillin-binding protein precursor (Beta-lactamase class C) from Lactobacillus sakei subsp. sakei 23K
24% identity, 52% coverage
- Global transcriptome response in Lactobacillus sakei during growth on ribose
McLeod, BMC microbiology 2011 - “...murE UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase -0.6 -0.6 -0.7 LSA0621 pbp2A Bifunctional glycolsyltransferase/transpeptidase penicillin binding protein 2A 0.7 LSA0648 lsa0648 Putative penicillin-binding protein precursor (beta-lactamase class C) 1.0 LSA0862 lsa0862 N-acetylmuramoyl-L-alanine amidase precursor (cell wall hydrolase) (autolysin) 0.6 0.8 LSA0917 pbp1A Bifunctional glycosyltransferase/transpeptidase penicillin-binding protein 1A 0.5 LSA1123 murA1...”
Smal_1234 beta-lactamase from Stenotrophomonas maltophilia R551-3
25% identity, 68% coverage
- Comparative Genomics of Environmental and Clinical Stenotrophomonas maltophilia Strains with Different Antibiotic Resistance Profiles
Youenou, Genome biology and evolution 2015 - “...SMBUR_230019 AGRB_1080023 SMD_0496 BurJV3_0476 Smal_0457 SmPIER_60163 Putative beta-lactamase Smlt_1470 SmBFE_180025 ALOG_60039 SMBUR_80088 AGRB_910017 SMD_1305 BurJV3_1223 Smal_1234 SmPIER_160175 Putative metallo-beta-lactamase superfamily protein Smlt_1815 SmBFE_190085 ALOG_60526 SMBUR_190042 AGRB_1210006 SMD_1751 BurJV3_1601 Smal_1554 SmPIER_170243 Putative beta-lactamase Smlt_3114 SmBFE_280113 ALOG_130332 SMBUR_30157 AGRB_840024 SMD_2694 BurJV3_2565 Smal_2553 SmPIER_440066 Putative beta-lactamase Smlt_3495 SmBFE_300159 ALOG_130697...”
SSA_0332 hypothetical protein from Streptococcus sanguinis SK36
28% identity, 51% coverage
BurJV3_1223 serine hydrolase from Stenotrophomonas maltophilia JV3
25% identity, 68% coverage
- Comparative Genomics of Environmental and Clinical Stenotrophomonas maltophilia Strains with Different Antibiotic Resistance Profiles
Youenou, Genome biology and evolution 2015 - “...ALOG_30161 SMBUR_230019 AGRB_1080023 SMD_0496 BurJV3_0476 Smal_0457 SmPIER_60163 Putative beta-lactamase Smlt_1470 SmBFE_180025 ALOG_60039 SMBUR_80088 AGRB_910017 SMD_1305 BurJV3_1223 Smal_1234 SmPIER_160175 Putative metallo-beta-lactamase superfamily protein Smlt_1815 SmBFE_190085 ALOG_60526 SMBUR_190042 AGRB_1210006 SMD_1751 BurJV3_1601 Smal_1554 SmPIER_170243 Putative beta-lactamase Smlt_3114 SmBFE_280113 ALOG_130332 SMBUR_30157 AGRB_840024 SMD_2694 BurJV3_2565 Smal_2553 SmPIER_440066 Putative beta-lactamase Smlt_3495 SmBFE_300159...”
O3I_003205 serine hydrolase domain-containing protein from Nocardia brasiliensis ATCC 700358
30% identity, 38% coverage
NP_216438 lipoprotein from Mycobacterium tuberculosis H37Rv
MT1973 peptidase, putative from Mycobacterium tuberculosis CDC1551
Rv1922 PROBABLE CONSERVED LIPOPROTEIN from Mycobacterium tuberculosis H37Rv
Mb1957 PROBABLE CONSERVED LIPOPROTEIN from Mycobacterium bovis AF2122/97
30% identity, 46% coverage
- Differential expression of two members of Rv1922-LipD operon in Mycobacterium tuberculosis: Does rv1923 qualify for membership?
Dogra, Pathogens and disease 2015 (PubMed)- GeneRIF: The results from this study indicated that although the genes were expressed in an operonic manner, there existed the possibility of differential regulation for rv1923 which has been supported by internal regulatory sites in the operon.
- Transcriptional Profiling of Mycobacterium tuberculosis Exposed to In Vitro Lysosomal Stress
Lin, Infection and immunity 2016 - “...Rv0671 Rv0934 Rv0985c Rv1258c Rv1456c Rv1473 MT1642 MT1926 MT1973 MT1997 MT2016 MT2031 MT2040 MT2097 MT2100 MT2101 MT2334 MT2339 MT2469 MT2471 MT2598 MT2901...”
- Roles of Lipolytic enzymes in Mycobacterium tuberculosis pathogenesis
Lin, Frontiers in microbiology 2024 - “...undoubtedly improve comprehension of the Mtb life cycle. The hypothetical lipases/esterases such as Rv2030c, Rv1367c, Rv1922, Rv1063c and Rv3728, summarized in Table 2 and Supplementary Table S2 , are predicted to be important in the life cycle in Mtb according to their subcellular localization and similarity...”
- “...their predicted function. Enzyme classification Gene product Predicted subcellular localization Predicted function Comments References Lipase Rv1922 Extracellular May contribute to loss of virulence Similar to Mtb hypothetical proteins Rv1497(LipP), Rv2463(LipE), Rv3775(LipF), M. bovis Mb1957, etc. Contains PS00013 Prokaryotic membrane lipoprotein lipid attachment site Dogra et al....”
- Penicillin Binding Proteins and β-Lactamases of Mycobacterium tuberculosis: Reexamination of the Historical Paradigm
Kumar, mSphere 2022 - “...PBP Rv2864c. Low-molecular-mass (LMM) PBPs include DacB, DacB1, DacB2, and potentially, Rv0907, Rv1367, Rv1730, and Rv1922 ( 36 ). The M. tuberculosis genome encodes four proteins with -lactamase activityBlaC, Rv0406c, Rv3677c, and CrfA ( 37 40 ). Among these, BlaC is the most potent -lactamase (...”
- Bactericidal Disruption of Magnesium Metallostasis in Mycobacterium tuberculosis Is Counteracted by Mutations in the Metal Ion Transporter CorA
Lopez, mBio 2019 - “...Clone CorA mutation Other gene Clone CorA mutation Other gene(s) 1 E212D None 4 A317S rv1922 Y153 b 5 L229V None 1 A317S vapB48 2 D285N rv1520 S317 + ppsE W1428R rocE V270 + 6 D285G None 2 A317S corA only c 3 E212D None 7...”
- Signatures of Selection at Drug Resistance Loci in Mycobacterium tuberculosis
Mortimer, mSystems 2018 - “...0.06 N All 2155168 katG Missense 0.36 0.89 0.13 0.32 0.60 0.66 Y All 2174216 Rv1922 Synonymous 0.08 N All 2207525 Rv1958c Intergenic 0.09 N All 2422824 Rv2161c Missense 0.30 0.43 0.57 0.10 N All 2660319 mbtF Missense 0.06 N All 2715369 Rv3413c Intergenic 0.17 0.09...”
- Transcriptional Profiling of Mycobacterium tuberculosis Exposed to In Vitro Lysosomal Stress
Lin, Infection and immunity 2016 - “...MT2339 MT2469 MT2471 MT2598 MT2901 Rv1607 Rv1877 Rv1922 Rv1946c Rv1964 Rv1979c Rv1986 Rv2037c Rv2040c Rv2041c Rv2273 Rv2281 Rv2398c Rv2400c Rv2522c Rv2835c...”
- “...including peptidoglycan cross-linking and remodeling (lpqK and Rv1922), degradation processes (Rv0671), host cell adhesion and invasion (Rv0593), and as solute...”
- Differential expression of two members of Rv1922-LipD operon in Mycobacterium tuberculosis: Does rv1923 qualify for membership?
Dogra, Pathogens and disease 2015 (PubMed)- “...gene expression in comparison to its upstream gene rv1922 of Rv1922-LipD operon, to which both belong. Editor: Patricia Bozza ABSTRACT rv1922 and rv1923 (lipD)...”
- “...Rv1922-LipD operon in the genome of Mycobacterium tuberculosis. rv1922 was expressed under aerobic and stress conditions, whereas rv1923 was not expressed in...”
- Roles of Lipolytic enzymes in Mycobacterium tuberculosis pathogenesis
Lin, Frontiers in microbiology 2024 - “...contribute to loss of virulence Similar to Mtb hypothetical proteins Rv1497(LipP), Rv2463(LipE), Rv3775(LipF), M. bovis Mb1957, etc. Contains PS00013 Prokaryotic membrane lipoprotein lipid attachment site Dogra et al. (2015) Esterase Rv1062 Cytoplasmic May contribute to loss of virulence Similar to lipase and phospholipase Ortega et al....”
2efuE / Q9LCC8 The crystal structure of d-amino acid amidase from ochrobactrum anthropi sv3 complexed with l-phenylalanine (see paper)
26% identity, 47% coverage
- Ligand: phenylalanine (2efuE)
AOLE_12585 serine hydrolase domain-containing protein from Acinetobacter oleivorans DR1
23% identity, 44% coverage
alr0153 penicillin-binding protein from Nostoc sp. PCC 7120
27% identity, 34% coverage
- Structural Determinants and Their Role in Cyanobacterial Morphogenesis
Springstein, Life (Basel, Switzerland) 2020 - “...wall synthesis PBP8 Slr0804 (WP_010872730.1) N/A Alr0718 (WP_010994893.1) g Cell wall synthesis PBP9 N/A N/A Alr0153 (WP_010994330.1) Cell wall synthesis PBP10 N/A N/A Alr1666 (WP_010995835.1) Cell wall synthesis PBP11 N/A N/A Alr0054 (WP_010994231.1) Cell wall synthesis PBP12 N/A N/A All2656 (WP_010996812.1) Cell wall synthesis Absent in...”
PAM18_3247 serine hydrolase domain-containing protein from Pseudomonas aeruginosa M18
32% identity, 28% coverage
- Genomic analysis and temperature-dependent transcriptome profiles of the rhizosphere originating strain Pseudomonas aeruginosa M18
Wu, BMC genomics 2011 - “...-lactamase gene ampC (PAM18_0829) and other eight putative -lactamase genes (i.e., PAM18_0058, PAM18_1371, PAM18_2047, PAM18_2725, PAM18_3247, PAM18_4437, PAM18_5635, and PAM18_5664), which are responsible for encoding enzymes resistant to -lactam antibiotics [ 56 , 57 ]. Furthermore, the M18 genome contains several gene clusters encoding proteins to...”
GSU1378 beta-lactamase from Geobacter sulfurreducens PCA
29% identity, 47% coverage
NP_495790 Beta-lactamase-related domain-containing protein from Caenorhabditis elegans
24% identity, 83% coverage
B5J99_03460 serine hydrolase domain-containing protein from Blastomonas fulva
30% identity, 34% coverage
- New Multidrug Efflux Systems in a Microcystin-Degrading Bacterium Blastomonas fulva and Its Genomic Feature
Jin, International journal of molecular sciences 2022 - “...B. fulva T2 was found to harbor homologs of the gene cluster mlrBD 1,2,3,4 AC (B5J99_03460 to B5J99_03490, Figure 5 A), which were responsible for the conversion of MC-LR to Adda [ 5 ]. The mlrA gene encodes a neutral metalloprotease with optimal function at pH...”
- “...microcystinase MlrA which breaks the conventional hydrogen bond to reduce its toxicity. The mlrB gene (B5J99_03460) is located downstream of the mlrA and mlrD 1,2,3,4 genes encoding proteins which cleave linear MC-LR to a tetrapeptide degradation product and possibly characterized as serine peptidase [ 5 ]....”
BDP_0556, BIFDEN_00213 serine hydrolase domain-containing protein from Bifidobacterium dentium ATCC 27678
26% identity, 87% coverage
- In silico assigned resistance genes confer Bifidobacterium with partial resistance to aminoglycosides but not to β-lactams
Fouhy, PloS one 2013 - “...dependent hydrolase with PF07521 B. dentium Bd1 YP_003359579.1 a BDP_0063 Hypothetical protein PF13354 YP_003360049.1 b BDP_0556 Hypothetical protein PF00144 YP_003361167.1 d BDP_1754 Hypothetical protein Metal dependent hydrolase with PF07521 B. dentium ATCC 27678 ZP_02917480.1 a BIFDEN_00760 Hypothetical protein PF11354 ZP_02916953.1 b BIFDEN_00213 Hypothetical protein PF00144 ZP_02918099.1...”
- “...hydrolase with PF07521 B. dentium ATCC 27678 ZP_02917480.1 a BIFDEN_00760 Hypothetical protein PF11354 ZP_02916953.1 b BIFDEN_00213 Hypothetical protein PF00144 ZP_02918099.1 d BIFDEN_01398 Hypothetical protein Metal dependent hydrolase with PF07521 B. gallicum DSM 20093 ZP_05965566.1 d BIFGAL_03078 Metallo-beta-lactamase family protein Metal dependent hydrolase with PF07521 B. adolescentis...”
SVEN_0306 serine hydrolase from Streptomyces venezuelae ATCC 10712
28% identity, 52% coverage
WP_005321278 EstA family serine hydrolase from Streptomyces pristinaespiralis
31% identity, 49% coverage
blaINQ-1 / CDG15342.1 class C beta-lacatamase from Inquilinus limosus (see paper)
30% identity, 79% coverage
XCC2636 beta-lactamase from Xanthomonas campestris pv. campestris str. ATCC 33913
27% identity, 67% coverage
YP_759753 putative esterase from Hyphomonas neptunium ATCC 15444
25% identity, 63% coverage
NP_770552 bll3912 from Bradyrhizobium japonicum USDA 110
32% identity, 48% coverage
BurJV3_0373 serine hydrolase domain-containing protein from Stenotrophomonas maltophilia JV3
37% identity, 20% coverage
SSA_1369 FmtA-like protein, putative from Streptococcus sanguinis SK36
22% identity, 58% coverage
Cmaq_0116 beta-lactamase from Caldivirga maquilingensis IC-167
25% identity, 48% coverage
- Structure of the archaeal pab87 peptidase reveals a novel self-compartmentalizing protease family
Delfosse, PloS one 2009 - “...names are as following: pab87, Pyrococcus abyssi PAB0087, phori, Pyrococcus horikoshii PH0142/PH0143, cmaqu, Caldivirga maquilingensis Cmaq_0116, paero, Pyrobaculum aerophilum PAE3237, hbuty, Hyperthermus butylicus Hbut_1035, apern, Aeropyrum pernix Ap_0338, gprot, marine -proteobacterium HTCC2207. -helices (cylinders) and -strands (arrows) of P. abyssi Pab87 are aligned with the sequences...”
BBA_08696 trichodiene synthase from Beauveria bassiana ARSEF 2860
28% identity, 28% coverage
AT5G24810 ABC1 family protein from Arabidopsis thaliana
27% identity, 18% coverage
- Plant competition cues activate a singlet oxygen signaling pathway in Arabidopsis thaliana
Berardi, Frontiers in plant science 2024 - “...x10 -2 (5) At1g44350 ILL6 ; IAA-leucine resistance (ILR)-like6 3.26 0.09 2.6 x10 -3 (6) At5g24810 ABC1K11 ; ABC1 family protein 0.97 0.09 1.2 x10 -2 Sulfotransferases (7) At5g07010 ST2a ; sulfotransferase 2a 3.32 10.02 7.7 x10 -9 (8) At5g07000 ST2b ; sulfotransferase 2b 1.16 2.23...”
- Rho GTPase ROP1 Interactome Analysis Reveals Novel ROP1-Associated Pathways for Pollen Tube Polar Growth in Arabidopsis
Li, International journal of molecular sciences 2020 - “...in Arabidopsis [ 47 ]. In our screen, 4 ABC proteins (AT5G60790, AT4G01660, AT5G60740, and AT5G24810) were found to be associated with ROP1 in PT. AT5G60790 was classified as a member of ABCF and likely functions in processes other than transport, as is the case for...”
- “...ABCA1 appears to be orthologous to the mammalian ABC1, and two ABCA1 members, AT4G01660 and AT5G24810, which co-precipitated with ROP1 in PT. The substrates transported by ABCA members were not clear until now, and whether their function is required for ROP1 signaling in PT will be...”
- Long-Term Boron-Excess-Induced Alterations of Gene Profiles in Roots of Two Citrus Species Differing in Boron-Tolerance Revealed by cDNA-AFLP
Guo, Frontiers in plant science 2016 (no snippet) - Combining modelling and experimental approaches to explain how calcium signatures are decoded by calmodulin-binding transcription activators (CAMTAs) to produce specific gene expression responses
Liu, The New phytologist 2015 - “...AT4G22610 1.62 1.99 Not induced AT4G29670 2.26 1.89 Not induced AT4G30210 1.74 2.53 Not induced AT5G24810 2.11 2.06 Not induced AT5G45350 2.40 3.24 Not induced Not induced refers to a <1.5fold change (Whalley etal ., 2011 ). John Wiley & Sons, Ltd The capability of the...”
- QTL analysis using SNP markers developed by next-generation sequencing for identification of candidate genes controlling 4-methylthio-3-butenyl glucosinolate contents in roots of radish, Raphanus sativus L
Zou, PloS one 2013 - “...markers Rs2CL1297s and Rs2CL1508s of GSL-QTL-4 were shown to have high homology with At5g11670 and At5g24810, respectively [24] . In this region, MAM3 (At5g23020, Bra013009/013011/029356/021947) was selected as a candidate gene by comparison with the B. rapa genome [40] . Moreover, IPMDH1 (At5g14200, Bra023450) and BCAT4...”
- ABC1K atypical kinases in plants: filling the organellar kinase void
Lundquist, Trends in plant science 2012 - “...Os04g56510 M N.d GRMZM2G087201 M N.d. GRMZM2G368486 S N.d. Mitochondrial clade a 11 ABC1K11 Mitoch. AT5G24810 M Leaf Os06g48770 M Leaf GRMZM2G140917 M N.d. 12 ABC1K12 Mitoch. AT4G24810 C N.d Os01g67720 C N.d. GRMZM2G113264 M N.d. AT5G50330 C N.d GRMZM5G884972 q M N.d. 13 ABC1K13 Mitoch....”
- Cross genome comparisons of serine proteases in Arabidopsis and rice
Tripathi, BMC genomics 2006 - “...is associated with groups of proteins that include eukaryotic Gag or capsid-related retrotranposon-related proteins. 7. At5g24810, LOC_Os06g48770 (serine -lactamse family S12)- Domain architecture ABC1-S12. The putative gene products are associated with an ABC1 domain N-terminal to the serine -lactamase domain (Figure 2 ; see additional files...”
A4V12_17360 serine hydrolase domain-containing protein from Streptomyces noursei
31% identity, 44% coverage
LACTB_HUMAN / P83111 Serine beta-lactamase-like protein LACTB, mitochondrial; EC 3.4.-.- from Homo sapiens (Human) (see 4 papers)
NP_116246 serine beta-lactamase-like protein LACTB, mitochondrial isoform a precursor from Homo sapiens
33% identity, 19% coverage
- function: Mitochondrial serine protease that acts as a regulator of mitochondrial lipid metabolism (PubMed:28329758). Acts by decreasing protein levels of PISD, a mitochondrial enzyme that converts phosphatidylserine (PtdSer) to phosphatidylethanolamine (PtdEtn), thereby affecting mitochondrial lipid metabolism (PubMed:28329758). It is unclear whether it acts directly by mediating proteolysis of PISD or by mediating proteolysis of another lipid metabolism protein (PubMed:28329758). Acts as a tumor suppressor that has the ability to inhibit proliferation of multiple types of breast cancer cells: probably by promoting decreased levels of PISD, thereby affecting mitochondrial lipid metabolism (PubMed:28329758).
- OXCT1 functions as a succinyltransferase, contributing to hepatocellular carcinoma via succinylating LACTB.
Ma, Molecular cell 2024 (PubMed)- GeneRIF: OXCT1 functions as a succinyltransferase, contributing to hepatocellular carcinoma via succinylating LACTB.
- LACTB suppresses liver cancer progression through regulation of ferroptosis.
Zeng, Redox biology 2024 - GeneRIF: LACTB suppresses liver cancer progression through regulation of ferroptosis.
- LACTB induces cancer cell death through the activation of the intrinsic caspase-independent pathway in breast cancer.
Gonzalez-Morena, Apoptosis : an international journal on programmed cell death 2023 - GeneRIF: LACTB induces cancer cell death through the activation of the intrinsic caspase-independent pathway in breast cancer.
- LACTB exerts tumor suppressor properties in epithelial ovarian cancer through regulation of Slug.
Cutano, Life science alliance 2023 - GeneRIF: LACTB exerts tumor suppressor properties in epithelial ovarian cancer through regulation of Slug.
- PCBP1 protects bladder cancer cells from mitochondria injury and ferroptosis by inducing LACTB mRNA degradation.
Luo, Molecular carcinogenesis 2023 (PubMed)- GeneRIF: PCBP1 protects bladder cancer cells from mitochondria injury and ferroptosis by inducing LACTB mRNA degradation.
- Clinical Significance of β-Lactamase Expression in Colorectal Cancer.
Zhou, Cancer biotherapy & radiopharmaceuticals 2022 (PubMed)- GeneRIF: Clinical Significance of beta-Lactamase Expression in Colorectal Cancer.
- Structural basis for the catalytic activity of filamentous human serine beta-lactamase-like protein LACTB.
Zhang, Structure (London, England : 1993) 2022 (PubMed)- GeneRIF: Structural basis for the catalytic activity of filamentous human serine beta-lactamase-like protein LACTB.
- LACTB suppresses migration and invasion of glioblastoma via downregulating RHOC/Cofilin signaling pathway.
Hu, Biochemical and biophysical research communications 2022 (PubMed)- GeneRIF: LACTB suppresses migration and invasion of glioblastoma via downregulating RHOC/Cofilin signaling pathway.
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- Comprehensive succinylome analyses reveal that hyperthermia upregulates lysine succinylation of annexin A2 by downregulating sirtuin7 in human keratinocytes
Niu, Journal of translational internal medicine 2024 - “...succinylated sites Protein accession Protein description Gene name Position heat/control ratio heat/control P value Regulation P83111 Serine beta-lactamase-like protein, mitochondrial LACTB K266 7.357 0.000347 Up K243 4.750 0.0003 Up K252 4.626 0.00783 Up K259 4.384 0.0236 Up K283 3.267 0.0291 Up K284 3.204 0.000126 Up P41250...”
- Influenza A virus propagation requires the activation of the unfolded protein response and the accumulation of insoluble protein aggregates
Marques, iScience 2024 - “...2 10,27 O00203 AP3B1 AP-3 complex subunit beta-1 10,17 P13667 PDIA4 Protein disulfide-isomerase A4 9,48 P83111 LACTB Serine beta-lactamase-like protein LACTB 9,45 C9J2Y9 POLR2B DNA-directed RNA polymerase subunit beta 9,37 Q12769 NUP160 Nuclear pore complex protein Nup160 9,28 Q8NBQ5 HSD17B11 Estradiol 17-beta-dehydrogenase 11 9,18 P02769 BSA...”
- Influenza A virus activates the unfolded protein response and induces the accumulation of insoluble protein aggregates that are essential for efficient viral propagation
Marques, 2023 - Proteome changes of fibroblasts and endothelial cells upon incubation with human cytomegalovirus subviral Dense Bodies.
Penner, Scientific data 2023 - “...Q9NVP2 1;1;1;0;0 3 ASF1B Histone chaperone ASF1B 1.189 1.355 0.708 1.084 0.004 2.419 + yes P83111 1;1;2;0;0 3 LACTB Serine beta-lactamase-like protein LACTB, mitochondrial 1.323 1.158 0.864 1.115 0.001 2.824 + yes O75884 1;1;1;0;0 3 RBBP9 Serine hydrolase RBBP9 1.263 1.827 0.263 1.118 0.036 1.441 +...”
- Network pharmacology and molecular docking analysis on the mechanism of Baihe Zhimu decoction in the treatment of postpartum depression
Zhao, Medicine 2022 - “...P04150 202 PIK3CG P48736 293 NR3C2 P08235 21 NR3C1 P04150 112 GABRA1 P14867 203 LACTB P83111 294 ADRB2 P07550 22 NOS2 P35228 113 DPP4 P27487 204 CHEK1 O14757 295 AKR1B1 P15121 23 F2 P00734 114 MAPK14 Q16539 205 PRKACA P17612 296 NR3C1 P04150 24 ESR1 P03372...”
- “...P35354 117 PIK3CG P48736 208 CCNA2 P20248 299 PLAU P00749 27 RXRA P19793 118 LACTB P83111 209 NCOA2 Q15596 300 CDK2 P24941 28 ACHE P22303 119 CHRNA7 P36544 210 NOS2 P35228 301 LACTB P83111 29 PGR P06401 120 CHEK1 O14757 211 PTGS1 P23219 302 LTA4H P09960...”
- The structure of the human LACTB filament reveals the mechanisms of assembly and membrane binding
Bennett, PLoS biology 2022 - “...generated from the human LACTB structure. Sequences were aligned using Homo Sapiens LACTB (Uniprot ID: P83111), S . aureus ClbP (Uniprot ID: Q7A3Q5), P . abyssi Pab87 peptidase (Uniprot ID: Q9V2D6), A . halodurans penicillin-binding protein (Uniprot ID: Q9KAM0), and B . anthropi D-amino-acid amidase (Uniprot...”
- “...are generated from the human LACTB structure. LACTB sequences from Homo sapiens (human; Uniprot ID: P83111), Pan troglodytes (chimpanzee; Uniprot ID: K7CYM3), Macaca mulatta (rhesus macaque; Uniprot ID: F7EXQ6), Mus musculus (mouse; Uniprot ID: Q9EP89), Bos taurus (cow; Uniprot ID: P83095), Equus asinus (donkey; Uniprot ID:...”
- Uncovering the mechanism of the effects of Paeoniae Radix Alba on iron-deficiency anaemia through a network pharmacology-based strategy
Ye, BMC complementary medicine and therapies 2020 - “...P29474 NOS3 nitric oxide synthase 3 None 70 Q16790 CA9 carbonic anhydrase 9 None 71 P83111 LACTB lactamase beta None 72 P06276 BCHE butyrylcholinesterase None 73 P09211 GSTP1 glutathione S-transferase pi 1 None 74 P06213 INSR insulin receptor None 75 P14679 TYR tyrosinase None 76 Q12809...”
- Identification of HO-1 as a novel biomarker for graft acute cellular rejection and prognosis prediction after liver transplantation
Jia, Annals of translational medicine 2020 - “...PKLR PKLR 0.758 Q9NQR4 Omega-amidase NIT2 NIT2 0.758 O94855 Protein transport protein Sec24D SEC24D 0.760 P83111 Serine beta-lactamase-like protein LACTB, mitochondrial LACTB 0.761 Q6UWY5 Olfactomedin-like protein 1 OLFML1 0.762 Q86SX6 Glutaredoxin-related protein 5, mitochondrial GLRX5 0.763 Q14624 Inter-alpha-trypsin inhibitor heavy chain H4 ITIH4 0.774 Q9UIJ7 GTP:AMP...”
- More
K7CYM3 Lactamase beta from Pan troglodytes
33% identity, 19% coverage
F7EXQ6 Lactamase beta from Macaca mulatta
33% identity, 19% coverage
LACTB_MOUSE / Q9EP89 Serine beta-lactamase-like protein LACTB, mitochondrial; EC 3.4.-.- from Mus musculus (Mouse) (see 2 papers)
33% identity, 19% coverage
- function: Mitochondrial serine protease that acts as a regulator of mitochondrial lipid metabolism (By similarity). Acts by decreasing protein levels of PISD, a mitochondrial enzyme that converts phosphatidylserine (PtdSer) to phosphatidylethanolamine (PtdEtn), thereby affecting mitochondrial lipid metabolism (By similarity). It is unclear whether it acts directly by mediating proteolysis of PISD or by mediating proteolysis of another lipid metabolism protein (By similarity). Acts as a tumor suppressor that has the ability to inhibit proliferation of multiple types of cancer cells: probably by promoting decreased levels of PISD, thereby affecting mitochondrial lipid metabolism (PubMed:28329758).
- ISG15 Is Required for the Dissemination of Vaccinia Virus Extracellular Virions
Bécares, Microbiology spectrum 2023 - “...Protein Gene Log 2 FC ( ISG15 / vs ISG15 +/+ ) Log P Mitochondria Q9EP89 Serine beta-lactamase-like protein LACTB, mitochondrial Lactb 1.73 3.28 Q8K2M0 39S ribosomal protein L38, mitochondrial Mrpl38 1.60 3.11 Q9D1B9 39S ribosomal protein L28, mitochondrial Mrpl28 1.33 2.66 Q8VEM8 Phosphate carrier protein,...”
- The structure of the human LACTB filament reveals the mechanisms of assembly and membrane binding
Bennett, PLoS biology 2022 - “...Uniprot ID: K7CYM3), Macaca mulatta (rhesus macaque; Uniprot ID: F7EXQ6), Mus musculus (mouse; Uniprot ID: Q9EP89), Bos taurus (cow; Uniprot ID: P83095), Equus asinus (donkey; Uniprot ID: UPI001D03C0DD), Puma concolor (mountain lion; Uniprot ID: A0A6P6HFT1), and Lontra canadensis (river otter; Uniprot ID: UPI0013F34634) are aligned. (TIF)...”
- Multidimensional Top-Down Proteomics of Brain-Region-Specific Mouse Brain Proteoforms Responsive to Cocaine and Estradiol.
Park, Journal of proteome research 2019 - “...alpha 1 phospho residue, 1 acetyl residue 1.6 51972 P62962 Profilin-1 N-terminal acetylation 1.6 70070 Q9EP89 Serine beta-lactamase-like protein LACTB; mitochondrial 1.6 22738 P56391 Cytochrome c oxidase subunit 6B1 N6-acetyl-L-lysine@61 1.6 22390 P56391 Cytochrome c oxidase subunit 6B1 N-terminal acetylation 1.6 49843 O550421 Alpha-synuclein N-terminal acetylation,...”
- Maternal High Fat Diet and in-Utero Metformin Exposure Significantly Impact upon the Fetal Renal Proteome of Male Mice.
Nüsken, Journal of clinical medicine 2019 - “...Thy-1 membrane glycoprotein <0.05 10.0 0 3 Thy1 B1AQR8 Galectin <0.05 9.2 0 3 Lgals9 Q9EP89 Serine beta-lactamase-like protein LACTB, mitochondrial <0.05 9.1 0 3 Lactb P61028 Ras-related protein Rab-8B <0.05 9.0 0 3 Rab8b Q8BJ64 Choline dehydrogenase, mitochondrial <0.05 8.4 0 3 Chdh Q6P069 Sorcin...”
- “...G3UXX5 DNA-directed RNA polymerases I and III subunit RPAC1 <0.05 11.3 0 3 Polr1c $ Q9EP89 Serine beta-lactamase-like protein LACTB, mitochondrial <0.05 9.0 0 3 Lactb Q9D706 RNA polymerase II-associated protein 3 <0.05 8.2 0 3 Rpap3 Q8K2T8 RNA polymerase II-associated factor 1 homolog <0.05 7.9...”
- Functional proteomic analysis of corticosteroid pharmacodynamics in rat liver: Relationship to hepatic stress, signaling, energy regulation, and drug metabolism.
Ayyar, Journal of proteomics 2017 - “...and transfers to cytochrome c UP Q64380 Sardh Sarcosine dehydrogenase, mitochondrial Amine (sarcosine) degradation UP/DOWN Q9EP89 Lactb Serine beta-lactamase-like protein LACTB, mitochondrial Function unclear in liver UP/DOWN Q76MZ3 Ppp2r1a Serine/threonine-protein phosphatase 2A Assembly of the catalytic subunit of serine/threonine-protein phosphatase UP Q62261 Sptbn1 Spectrin beta chain,...”
- Evolution of a family of metazoan active-site-serine enzymes from penicillin-binding proteins: a novel facet of the bacterial legacy
Peitsaro, BMC evolutionary biology 2008 - “...order: Homsa, Homo sapiens (Swiss-Prot: P83111 ); Macmu, Macaca mulatta (Ensembl:ENSMMUP00000004719); Musmu, Mus musculus (Swiss-Prot: Q9EP89 ); Orycu, Oryctolagus cuniculus (Ensembl:ENSOCUP00000008608); Canfa, Canis familiaris (RefSeq:XP_544713); Bosta, Bos taurus (Swiss-Prot: P83095 ); Mondo, Monodelphis domestica (Ensembl:ENSMODP00000013893); Galga, Gallus gallus (Swiss-Prot: Q5ZK12 ); Xentr, Xenopus tropicalis (Ensembl:ENSXETG00000009720); Fugru,...”
- “...LACTB-like protein 2 Macaca mulatta ENSMMUP00000004719 Ensembl LACTB Monodephis domestica ENSMODP00000013893 Ensembl LACTB Mus musculus Q9EP89 Swiss-Prot LACTB [11,13] Mus musculus XP_205950 RefSeq LACTB-like protein 2 Oryctolagus cuniculus ENSOCUP00000008608 Ensembl LACTB Oryzias latipes ENSORLP00000009787 Ensembl LACTB Tetrodon nigroviridis CAG03509 GenPept LACTB-like protein 2 [49] Tetrodon nigroviridis...”
- Proteomics analysis identifies phosphorylation-dependent alpha-synuclein protein interactions.
McFarland, Molecular & cellular proteomics : MCP 2008
CLZ13_COCLU / A0A345BJP5 Probable hydrolase clz13; Squalestatin S1 biosynthesis cluster protein clz13; Zaragozic acid A biosynthesis cluster protein 13; EC 3.5.-.- from Cochliobolus lunatus (Filamentous fungus) (Curvularia lunata) (see paper)
21% identity, 48% coverage
- function: Probable hydrolase; part of the gene cluster that mediates the biosynthesis of squalestatin S1 (SQS1, also known as zaragozic acid A), a heavily oxidized fungal polyketide that offers potent cholesterol lowering activity by targeting squalene synthase (SS) (PubMed:28605916). SQS1 is composed of a 2,8- dioxobicyclic[3.2.1]octane-3,4,5-tricarboxyclic acid core that is connected to two lipophilic polyketide arms (PubMed:28605916). These initial steps feature the priming of an unusual benzoic acid starter unit onto the highly reducing polyketide synthase clz14, followed by oxaloacetate extension and product release to generate a tricarboxylic acid containing product (PubMed:28605916). The phenylalanine ammonia lyase (PAL) clz10 and the acyl-CoA ligase clz12 are involved in transforming phenylalanine into benzoyl-CoA (PubMed:28605916). The citrate synthase-like protein clz17 is involved in connecting the C- alpha-carbons of the hexaketide chain and oxaloacetate to afford the tricarboxylic acid unit (PubMed:28605916). The potential hydrolytic enzymes, clz11 and clz13, are in close proximity to pks2 and may participate in product release (PubMed:28605916). On the other side, the tetraketide arm is synthesized by a the squalestatin tetraketide synthase clz2 and enzymatically esterified to the core in the last biosynthetic step, by the acetyltransferase clz6 (By similarity). The biosynthesis of the tetraketide must involve 3 rounds of chain extension (By similarity). After the first and second rounds methyl- transfer occurs, and in all rounds of extension the ketoreductase and dehydratase are active (By similarity). The enoyl reductase and C-MeT of clz2 are not active in the final round of extension (By similarity). The acetyltransferase clz6 appears to have a broad substrate selectivity for its acyl CoA substrate, allowing the in vitro synthesis of novel squalestatins (By similarity). The biosynthesis of SQS1 requires several oxidative steps likely performed by oxidoreductases clz3, clz15 and clz16 (Probable). Finally, in support of the identification of the cluster as being responsible for SQS1 production, the cluster contains a gene encoding a putative squalene synthase (SS) clz20, suggesting a likely mechanism for self-resistance (Probable).
HMPREF0168_1378 serine hydrolase domain-containing protein from Bifidobacterium dentium ATCC 27679
25% identity, 87% coverage
- In silico assigned resistance genes confer Bifidobacterium with partial resistance to aminoglycosides but not to β-lactams
Fouhy, PloS one 2013 - “...dentium genomes also share a conserved protein, representative of Pfam00144 (a -lactamase family), such as HMPREF0168_1378 from B. dentium ATCC 27679. B. catenulatum DSM 16992 (BIFCAT_01331) and B. pseudocatenulatum DSM 20438 (BIFPSEUDO_02501) also contained proteins from this family (PF00144) which were highly conserved (>90% identity). However,...”
- “...as Pfam B. dentium ATCC 27679 ZP_07457312.1 a HMPREF0168_1872 Conserved hypothetical protein PF13354 ZP_07456818.1 b HMPREF0168_1378 -lactamase PF00144 ZP_07455619.1 d HMPREF0168_0178 Hypothetical protein Metal dependent hydrolase with PF07521 B. dentium Bd1 YP_003359579.1 a BDP_0063 Hypothetical protein PF13354 YP_003360049.1 b BDP_0556 Hypothetical protein PF00144 YP_003361167.1 d BDP_1754...”
XP_640123 hypothetical protein from Dictyostelium discoideum AX4
26% identity, 20% coverage
PG0011 glycosyl hydrolase, family 3 from Porphyromonas gingivalis W83
25% identity, 35% coverage
TTHB021 hypothetical protein from Thermus thermophilus HB8
34% identity, 30% coverage
MT0409 lipoprotein, putative from Mycobacterium tuberculosis CDC1551
BCG_0436c putative lipoprotein lpqK from Mycobacterium bovis BCG str. Pasteur 1173P2
Rv0399c POSSIBLE CONSERVED LIPOPROTEIN LPQK from Mycobacterium tuberculosis H37Rv
27% identity, 48% coverage
- Transcriptional Profiling of Mycobacterium tuberculosis Exposed to In Vitro Lysosomal Stress
Lin, Infection and immunity 2016 - “...CDC1551b H37Rv Cell wall and cell processes MT0201 MT0409 MT0623 MT0700 MT0961 MT1013 MT1297 MT1503 MT1519 Rv0191 Rv0399c Rv0593 Rv0671 Rv0934 Rv0985c Rv1258c...”
- Transcriptional portrait of M. bovis BCG during biofilm production shows genes differentially expressed during intercellular aggregation and substrate attachment
Flores-Valdez, Scientific reports 2020 - “...protein. Orthologous to Rv1130 , PrpD, 2-methylcitrate dehydratase. BCG_2192c BCG_2192c 1.7692 7.07E14 Possible transposase lpqK BCG_0436c 1.7462 6.92E12 Possible conserved lipoprotein lpqK BCG_1053 BCG_1053 1.7207 5.49E09 Hypothetical protein parA_1 BCG_3976c 1.7153 6.49E14 Probable chromosome partitioning protein parA BCG_0343 BCG_0343 1.7095 6.09E11 Probable dehydrogenase/reductase BCG_1826 BCG_1826 1.7054...”
- “...M. marinum (Front Microbiol. 2018 May 30;9:1160. 10.3389/fmicb.2018.01160). BCG_2192c BCG_2192c -2.9092 9.86E14 Possible transposase lpqK BCG_0436c -2.9037 3.46E08 Possible conserved lipoprotein lpqK rpsK BCG_3524c -2.8992 1.14E17 Probable 30S ribosomal protein S11 rpsK dnaA_1 BCG_0001 -2.8632 5.63E22 chromosomal replication initiation protein dnaA BCG_1987c BCG_1987c -2.8213 1.10E10 Hypothetical...”
- Uncovering Beta-Lactam Susceptibility Patterns in Clinical Isolates of Mycobacterium tuberculosis through Whole-Genome Sequencing
Olivença, Microbiology spectrum 2022 - “...(7.43E03) High Rv3884c eccA2 4366195 T>C E215G 49 7.56E06 (4.41E02) - - 2.20E08 (7.43E03) High Rv0399c lpqK 478358 C>T E67K 51 - - - 5.32E07 (4.51E02) Low Rv1650 pheT 1861274 G>A R506H 54 - - - 8.36E07 (4.51E02) Low Rv0015c pknA 17608 G>C S385R 61 -...”
- Transcriptional Profiling of Mycobacterium tuberculosis Exposed to In Vitro Lysosomal Stress
Lin, Infection and immunity 2016 - “...MT0623 MT0700 MT0961 MT1013 MT1297 MT1503 MT1519 Rv0191 Rv0399c Rv0593 Rv0671 Rv0934 Rv0985c Rv1258c Rv1456c Rv1473 MT1642 MT1926 MT1973 MT1997 MT2016 MT2031...”
- Mycobacterium tuberculosis septum site determining protein, Ssd encoded by rv3660c, promotes filamentation and elicits an alternative metabolic and dormancy stress response
England, BMC microbiology 2011 - “...1.1 ndr Rv1493 mutB 1.2 0.5 Rv1737c narK2 1.9 0.2 Cell surface molecules Electron Trpt/Redox Rv0399c lpqK 0.8 -0.1 Rv0409 ackA 1.0 0.2 Rv0405 pks6 1.2 -0.2 Rv0886 fprB 0.8 0.1 Rv0593 lprL 1.1 0.0 Rv1620c cydC 1.6 0.0 Rv0604 lpqO 0.8 -0.1 Rv1622c cydB 2.0...”
- Functional genomics reveals extended roles of the Mycobacterium tuberculosis stress response factor sigmaH
Mehra, Journal of bacteriology 2009 - “...0.001 0.046 0.055 0.027 Cell wall associated Rv3793 Rv0399c Rv1235 Rv1921c Rv2945c Rv0451c Rv2350c Rv3682 Rv0284 Rv1184c embC lpqK lpqY lppF lppX mmpS4 plcB...”
PA14_41280 putative beta-lactamase from Pseudomonas aeruginosa UCBPP-PA14
30% identity, 29% coverage
- Gene Expression Profiling of Pseudomonas aeruginosa Upon Exposure to Colistin and Tobramycin
Cianciulli, Frontiers in microbiology 2021 - “...resistant Pae strains PA14_24360 PA14_24360 Hypothetical protein 13.58 18.41 PA14_34170 PA14_34170 Hypothetical protein 95.8 49.9 PA14_41280 PA14_41280 Beta-lactamase 111.9 42.62 PA14_41290 PA14_41290 Hypothetical protein 144.84 X PA14_63220 PA14_63220 Hypothetical protein 13.35 39.33 1 FC, fold-change, p -value 0.05. 2 Genes with FC 10 or 10 are...”
- “...( PA14_43311 ) and the genes of unknown function PA2358 ( PA14_34170 ), PA1797 ( PA14_41280 ), PA14_41290 and PA4782 ( PA14_63220 ) were also previously found to be de-regulated in response to polymyxins or in Pae strains harboring mutations that impact polymyxin resistance ( Cummins...”
- Adaptive and Mutational Responses to Peptide Dendrimer Antimicrobials in Pseudomonas aeruginosa
Ben, Antimicrobial agents and chemotherapy 2020 - “...namely, PA14_24360 (no homologue in PAO1), a gene located next to the cprRS operon, and PA14_41280 (PA1797), located next to the parRS operon. While the former was induced only by the dendrimers, the latter responded strongly (54-fold upregulation) to Pmx-B but not to the dendrimers (<2-fold)....”
- “...speE2 15.2 3.6 9.7 PA14_63130 PA4775 5.1 NC 3.9 PA14_24360 next cprRS 2.0 9.2 28.8 PA14_41280 next parRS 54.0 NC 2.2 PA14_38395 mexX 8.3 NC NC PA14_38410 mexY 8.9 NC NC PA14_63150 pmrA 2.6 NC 2.4 PA14_63160 pmrB 2.3 NC 2.2 a Genes in bold belong...”
- Multidrug Adaptive Resistance of Pseudomonas aeruginosa Swarming Cells
Coleman, Antimicrobial agents and chemotherapy 2020 (secret)
C9Z043 Putative secreted protein from Streptomyces scabiei (strain 87.22)
SCAB_84821 hypothetical protein from Streptomyces scabiei 87.22
27% identity, 54% coverage
Q9I2U5 Beta-lactamase-related domain-containing protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
PA1797 hypothetical protein from Pseudomonas aeruginosa PAO1
30% identity, 29% coverage
- Proteome-wide identification of druggable targets and inhibitors for multidrug-resistant <i>Pseudomonas aeruginosa</i> using an integrative subtractive proteomics and virtual screening approach
Vemula, Heliyon 2025 - “...2230 G3XCV3 3312 Q9HY34 4394 Q9I2T6 67 Q06749 1149 P65116 2231 G3XCV5 3313 Q9HY35 4395 Q9I2U5 68 Q51366 1150 P72157 2232 G3XCV8 3314 Q9HY36 4396 Q9I2V1 69 Q51371 1151 P72171 2233 G3XCV9 3315 Q9HY37 4397 Q9I2V2 70 Q51372 1152 Q01602 2234 G3XCW0 3316 Q9HY38 4398 Q9I2V3...”
- Spread of Pseudomonas aeruginosa ST274 Clone in Different Niches: Resistome, Virulome, and Phylogenetic Relationship
Chichón, Antibiotics (Basel, Switzerland) 2023 - “...number of aminoacidic changes was found, independently of the resistance phenotype of the strains, in PA1797, OprD, MexX, PdxB, and MexQ proteins. The results highlight the absence of vqsM gene and the presence of the same change/s in 26 genes (15.3%) of all ST274- P. aeruginosa...”
- Gene Expression Profiling of Pseudomonas aeruginosa Upon Exposure to Colistin and Tobramycin
Cianciulli, Frontiers in microbiology 2021 - “...the cprA ( PA14_43311 ) and the genes of unknown function PA2358 ( PA14_34170 ), PA1797 ( PA14_41280 ), PA14_41290 and PA4782 ( PA14_63220 ) were also previously found to be de-regulated in response to polymyxins or in Pae strains harboring mutations that impact polymyxin resistance...”
- The Efflux Pump MexXY/OprM Contributes to the Tolerance and Acquired Resistance of Pseudomonas aeruginosa to Colistin
Puja, Antimicrobial agents and chemotherapy 2020 - “...strategy (9). This approach showed that genes oprD, PA1797, PA2358 and PA2655 have no 134 influence on the bactericidal and bacteriostatic activities of...”
- “...phoPQ, 327 cprRS, arnBCADTEF-ugD (arn), PA4773, PA4774, PA4775, PA1797, PA2359, PA2655, mexXY, 328 and/or mexZ genes were constructed by using overlapping PCR...”
- Adaptive and Mutational Responses to Peptide Dendrimer Antimicrobials in Pseudomonas aeruginosa
Ben, Antimicrobial agents and chemotherapy 2020 - “...PA14_24360 (no homologue in PAO1), a gene located next to the cprRS operon, and PA14_41280 (PA1797), located next to the parRS operon. While the former was induced only by the dendrimers, the latter responded strongly (54-fold upregulation) to Pmx-B but not to the dendrimers (<2-fold). We...”
- Multidrug Adaptive Resistance of Pseudomonas aeruginosa Swarming Cells
Coleman, Antimicrobial agents and chemotherapy 2020 (secret) - Comparative Metabolomics and Transcriptomics Reveal Multiple Pathways Associated with Polymyxin Killing in Pseudomonas aeruginosa
Han, mSystems 2019 - “...In addition, the significant upregulation of several genes regulated by ParRS (e.g. , pagL , PA1797, and mexXY ) due to polymyxin B treatment in both the wild-type and pmrB mutant strains is indicative of the interactions between the two TCRs PmrAB and ParRS ( 13...”
- Pseudomonas aeruginosa transcriptome during human infection
Cornforth, Proceedings of the National Academy of Sciences of the United States of America 2018 - “...2.8 2.2 3.1 PA2943 3.2 1.8 3.7 PA3598 3.5 2.3 4.0 PA4063 2.9 2.0 3.4 PA1797 2.8 3.2 2.5 PA4570 2.8 2.0 3.2 PA3237 7.0 4.0 7.9 PA2018 mexY 2.3 2.0 2.5 PA4495 4.0 1.5 4.8 PA4709 phuS 2.4 1.9 2.8 PA4710 phuR 3.4 0.8 4.2...”
- “...discriminating genes as only four other genes of the 30 are inducible by antimicrobials (PA4063, PA1797, PA1414, PA2883) ( 19 ). For over 80 y, laboratory mice have been used as a model to understand human infection ( 33 ). Recently, researchers have begun asking to...”
- Resistance of Animal Strains of Pseudomonas aeruginosa to Carbapenems
Haenni, Frontiers in microbiology 2017 - “...Quantitative RT-PCR The transcripts of genes copR, czcC, czcR, mexB, mexE, mexY, oprD , and PA1797 were quantified in a Rotor gene RG6000 apparatus (Qiagen) with fluorescent intercalating dye SybrGreen (Fast SybrGreen kit, Qiagen). The primers used for RT-qPCR are listed in Table S1 . Briefly,...”
- “...a two-component system, which positively controls operon mexXY and an adjacent gene of unknown function, PA1797 (Muller et al., 2011 ). As indicated in Table 3 , among the 14 strains exhibiting low oprD mRNA levels, eight significantly upregulated genes mexY (from 9.44- to 72.57-fold) and...”
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SGGB_1939 serine hydrolase domain-containing protein from Streptococcus gallolyticus subsp. gallolyticus ATCC 43143
28% identity, 47% coverage
- Sequencing and comparative genome analysis of two pathogenic Streptococcus gallolyticus subspecies: genome plasticity, adaptation and virulence
Lin, PloS one 2011 - “...strains possess multiple copies of beta-lactamase genes in their chromosomes, they are SGGB_0012, SGGB_0845, SGGB_1549, SGGB_1939, SGGB_1972 and SGGB_2084 in ATCC 43143, and SGPB_0014, SGPB_0724, SGPB_1447, SGPB_1788, SGPB_1815 and SGPB_1893 in ATCC 43144 respectively. Most beta -lactamases have a broad-spectrum profiles, together with the presence of...”
A0R0P0 beta-lactamase (EC 3.5.2.6) from Mycolicibacterium smegmatis (see paper)
MSMEG_4455 beta-lactamase from Mycobacterium smegmatis str. MC2 155
27% identity, 78% coverage
NP_001398234 serine beta-lactamase-like protein LACTB, mitochondrial isoform 2 from Mus musculus
33% identity, 26% coverage
XP_008764464 serine beta-lactamase-like protein LACTB, mitochondrial isoform X1 from Rattus norvegicus
33% identity, 26% coverage
A0A0G2RKR9 beta-lactamase (EC 3.5.2.6) from uncultured bacterium (see paper)
27% identity, 51% coverage
XP_641364 beta-lactamase family protein from Dictyostelium discoideum AX4
22% identity, 38% coverage
Q6GVZ4 beta-lactamase (EC 3.5.2.6) from Laribacter hongkongensis (see paper)
31% identity, 28% coverage
PH197_01670 serine hydrolase domain-containing protein from Leuconostoc lactis
25% identity, 44% coverage
SGPB_1788 serine hydrolase domain-containing protein from Streptococcus pasteurianus ATCC 43144
31% identity, 39% coverage
- Sequencing and comparative genome analysis of two pathogenic Streptococcus gallolyticus subspecies: genome plasticity, adaptation and virulence
Lin, PloS one 2011 - “...are SGGB_0012, SGGB_0845, SGGB_1549, SGGB_1939, SGGB_1972 and SGGB_2084 in ATCC 43143, and SGPB_0014, SGPB_0724, SGPB_1447, SGPB_1788, SGPB_1815 and SGPB_1893 in ATCC 43144 respectively. Most beta -lactamases have a broad-spectrum profiles, together with the presence of multiple sets of beta -lactamases, the effectiveness of beta -lactam antibiotics...”
LHK_03028 AmpC from Laribacter hongkongensis HLHK9
31% identity, 28% coverage
- Transcriptomic Analysis of Laribacter hongkongensis Reveals Adaptive Response Coupled with Temperature
Kong, PloS one 2017 - “...no difference were found for other MDR genes such as two -lactamase encoded genes (LHK_00876, LHK_03028) at both temperatures ( S3 Fig ). 10.1371/journal.pone.0169998.g008 Fig 8 The graphs showed the mRNA expression of a) LHK_0212902131 b) LHK_0282502827 at 20C and 37C. Vertical error bars showed the...”
- Virulence determinants, drug resistance and mobile genetic elements of Laribacter hongkongensis: a genome-wide analysis
Lau, Cell & bioscience 2011 - “...violaceum 3e-81 207/427 (48%) PBP4a LHK_02959 mrcA Peptidoglycan glycosyltransferase C. violaceum 0 512/795 (64%) PBP1a LHK_03028 ampC -lactamase C. violaceum 7e-91 189/381 (49%) LHK_03062 ftsI Penicillin-binding protein 3 precursor C. violaceum 0 349/586 (59%) PBP3 LHK_03073 mrdA Penicillin-binding protein 2 C. violaceum 0 404/583 (69%) PBP2...”
- “...the bacteria resistant to -lactams [ 72 - 75 ]. Apart from the ampC gene (LHK_03028) that encodes the previously characterized class C -lactamase [ 76 ], there are two other putative -lactamases (LHK_00876 and LHK_00878) observed in the L. hongkongensis genome. They are both putative...”
B5L5V6 Beta-lactamase from bacterium BLR13
27% identity, 34% coverage
- Expanding the β-Lactamase Family in the Human Microbiome
Jia, Advanced science (Weinheim, Baden-Wurttemberg, Germany) 2024 - “...Class B lactamases. In contrast, lactamases from Classes C and D were associated with proteins (B5L5V6) originally from remote Alaskan soil, [ 20 ] suggesting that the lactamases from the two classes may be evolutionally derived from the same source. Among the 1369 proteins, 1327 had...”
Smlt0462 putative penicillin-binding protein 4 (pbp-4) from Stenotrophomonas maltophilia K279a
39% identity, 22% coverage
- Impacts of Penicillin Binding Protein 2 Inactivation on β-Lactamase Expression and Muropeptide Profile in Stenotrophomonas maltophilia
Huang, mSystems 2017 - “...the closest homologues in the S.maltophilia genome. These genes were Smlt3826, Smlt3681, Smlt3602, Smlt4056, Smlt0750, Smlt0462, and Smlt4050, the orthologues for the mrcA , mrcB , pbpC , mrdA , ftsI , dacB , and dacC E.coli genes, respectively. S.maltophilia lacks clear homologues for E.coli dacA...”
Smal_3669 beta-lactamase from Stenotrophomonas maltophilia R551-3
31% identity, 38% coverage
BurJV3_0070 serine hydrolase domain-containing protein from Stenotrophomonas maltophilia JV3
28% identity, 69% coverage
C0P5C4 Beta-lactamase-related domain-containing protein from Zea mays
27% identity, 31% coverage
Q84AE1 Beta-lactamase from Enterobacter cloacae
O54216 Beta-lactamase from Salmonella enteritidis
25% identity, 59% coverage
NP_218292 lipase LipE from Mycobacterium tuberculosis H37Rv
Rv3775 PROBABLE LIPASE LIPE from Mycobacterium tuberculosis H37Rv
25% identity, 70% coverage
- Mycobacterium tuberculosis LipE Has a Lipase/Esterase Activity and Is Important for Intracellular Growth and In Vivo Infection.
Yang, Infection and immunity 2019 - GeneRIF: The authors demonstrated that LipE has a lipase/esterase activity. rLipE prefers medium-chain ester substrates, with the maximal activity on hexanoate. Its activity is the highest at 40 degrees C and pH 9.
- High rate of macrolide resistance and closely genetically related Mycobacterium abscessus complex strains identified among both cystic fibrosis and non-cystic fibrosis patients within two countries
Dohál, Microbiology spectrum 2024 - “...in isolates from the same patient (patient A, Fig. 4A ) sampled across different years. Rv3775 is a homolog of MAB_0064c and encodes LipE in M. tuberculosis H37Rv. Recently, Rv3775 was reported to be important for intracellular growth in macrophages and in vivo infection ( 22...”
- Roles of Lipolytic enzymes in Mycobacterium tuberculosis pathogenesis
Lin, Frontiers in microbiology 2024 - “...( Shen et al., 2012 ), LipD (Rv1923) ( Singh et al., 2014 ), LipE (Rv3775) ( Yang et al., 2019 ), LipF (Rv3487c) ( Delorme et al., 2012 ), LipH (Rv1399c) ( Canaan et al., 2004 ), LipJ (Rv1900c) ( Kumari and Kaur, 2021 ),...”
- “...utilizes host lipids/esters during in vivo infection and identify potential vulnerabilities for drug discovery. LipE (Rv3775) is potentially involved in TAG metabolism in Mtb and crucial for intracellular survival. Yang et al. (2019) demonstrated that lipE expression is induced under stress conditions mimicking the intracellular environment...”
- Deciphering the Proteomic Landscape of Mycobacterium tuberculosis in Response to Acid and Oxidative Stresses
Choudhary, ACS omega 2022 - “...a distinct expression pattern between both stresses. Interestingly, three proteins viz. probable lipase LipE ( Rv3775 ) related to lipid metabolism, conserved protein Rv1429, and uncharacterized protein Rv0863 are found to exhibit a similar pattern of expression under all three stress conditions ( Figure 3 E)....”
- Identification of cell wall synthesis inhibitors active against Mycobacterium tuberculosis by competitive activity-based protein profiling
Li, Cell chemical biology 2022 - “...TesA Rv2928 thioesterase 5 7,8,9 LipM Rv2284 probable hydrolase 7,8,9 Cut2 Rv2301 probable carboxylesterase LipE Rv3775 probable lipase LipG Rv0646c probable lipase LipW Rv0217c probable esterase Rv2854 Rv2854 probable lipase LipN Rv2970c carboxylic ester hydrolase 7,8 LipD Rv1923 probable lipase BpoC Rv0554 putative non-heme bromoperoxidase 1...”
- Mycobacterium tuberculosis LipE Has a Lipase/Esterase Activity and Is Important for Intracellular Growth and In Vivo Infection
Yang, Infection and immunity 2019 - “...distributed under the terms of the Creative Commons Attribution 4.0 International license . Mycobacterium tuberculosis Rv3775 (LipE) was annotated as a putative lipase. However, its lipase activity has never been characterized, and its precise role in tuberculosis (TB) pathogenesis has not been thoroughly studied to date....”
- “...activity on hexanoate. Its activity is the highest at 40C and pH9. ABSTRACT Mycobacterium tuberculosis Rv3775 (LipE) was annotated as a putative lipase. However, its lipase activity has never been characterized, and its precise role in tuberculosis (TB) pathogenesis has not been thoroughly studied to date....”
- Genome-wide Phenotypic Profiling Identifies and Categorizes Genes Required for Mycobacterial Low Iron Fitness
Dragset, Scientific reports 2019 - “...iron dependent regulator IdeR 12 , 39 42 , such as msmeg_6575 ( lipE / rv3775 ), a putative -lactamase/lipase. Candidate genes required for mycobactin-mediated iron acquisition We know of few proteins involved in the recognition and transport of mycobactins across the mycobacterial outer membrane. Nor...”
- Cyclipostins and Cyclophostin analogs as promising compounds in the fight against tuberculosis
Nguyen, Scientific reports 2017 - “...dehydrogenase LldD2 Rv1872c 45.3 Dehydrogenase IM/R 31 Esterase LipM Rv2284 46.7 Lipase/esterase IM/R Lipase LipE Rv3775 45.2 Lipase/esterase IM/R 4 hypothetical protein LH57_07490 Rv1367c 43.7 -lactamase CW/CP Lipase/esterase LipN Rv2970c 40.1 Lipase/esterase IM/R 36 Alcohol dehydrogenase AdhB Rv0761c 39.7 Dehydrogenase IM/R 5 Lipase LipH Rv1399c 34.0...”
- Small-Molecule Probes Reveal Esterases with Persistent Activity in Dormant and Reactivating Mycobacterium tuberculosis
Tallman, ACS infectious diseases 2016 - “...Culp2 X X Rv3452 Culp4 X Rv3802c Culp6 X X Rv1923 LipD X X X Rv3775 LipE X X Rv0646c LipG X X Rv1399c LipH X X X Rv1400c LipI X X X Rv1497 LipL X X X Rv2284 LipM X X X X X X...”
- More
H8N02_08740 serine hydrolase domain-containing protein from Comamonas kerstersii
28% identity, 41% coverage
Smal_0343 beta-lactamase from Stenotrophomonas maltophilia R551-3
35% identity, 22% coverage
HUN01_34370 serine hydrolase domain-containing protein from Nostoc edaphicum CCNP1411
25% identity, 34% coverage
- Nostoc edaphicum CCNP1411 from the Baltic Sea-A New Producer of Nostocyclopeptides
Fidor, Marine drugs 2020 - “...engage substrate for post-translational modification of the PCP domain. Facing the same direction, an ORF5 (HUN01_34370) (1605 bp)-bearing putative domain classified as transpeptidase superfamily DD-carboxypeptidase and ORF6 (HUN01_34375) (2010 bp) homologous to ABC transporter ATP-binding protein/permease may be engaged in ncpAB peptide product transport [ 27...”
ADD62001.1 β-glucanase (EC 3.2.1.-) (see protein)
24% identity, 27% coverage
BF0425 putative esterase from Bacteroides fragilis YCH46
25% identity, 56% coverage
XP_002567997 uncharacterized protein from Penicillium rubens
23% identity, 91% coverage
JT31_22350 serine hydrolase domain-containing protein from Cedecea neteri
26% identity, 35% coverage
DX03_06745 serine hydrolase domain-containing protein from Stenotrophomonas rhizophila
29% identity, 46% coverage
XNC1_1705 serine hydrolase domain-containing protein from Xenorhabdus nematophila ATCC 19061
22% identity, 43% coverage
MAA_03283 beta-lactamase from Metarhizium robertsii ARSEF 23
29% identity, 41% coverage
MFM10_PHOSM / A0A3G1DJI3 Probable hydrolase M10; Squalestatin S1 biosynthesis cluster protein M10; EC 3.5.-.- from Phoma sp. (strain ATCC 20986 / MF5453) (see 4 papers)
26% identity, 34% coverage
- function: Probable hydrolase; part of the gene cluster that mediates the biosynthesis of squalestatin S1 (SQS1, also known as zaragozic acid A), a heavily oxidized fungal polyketide that offers potent cholesterol lowering activity by targeting squalene synthase (SS) (PubMed:27056201). SQS1 is composed of a 2,8- dioxobicyclic[3.2.1]octane-3,4,5-tricarboxyclic acid core that is connected to two lipophilic polyketide arms (PubMed:27056201). These initial steps feature the priming of an unusual benzoic acid starter unit onto the highly reducing polyketide synthase pks2, followed by oxaloacetate extension and product release to generate a tricarboxylic acid containing product (By similarity). The phenylalanine ammonia lyase (PAL) M7 and the acyl-CoA ligase M9 are involved in transforming phenylalanine into benzoyl-CoA (By similarity). The citrate synthase- like protein R3 is involved in connecting the C-alpha-carbons of the hexaketide chain and oxaloacetate to afford the tricarboxylic acid unit (By similarity). The potential hydrolytic enzymes, M8 and M10, are in close proximity to pks2 and may participate in product release (By similarity). On the other side, the tetraketide arm is synthesized by a the squalestatin tetraketide synthase pks1 and enzymatically esterified to the core in the last biosynthetic step, by the acetyltransferase M4 (PubMed:11251290, PubMed:15489970, PubMed:28106181). The biosynthesis of the tetraketide must involve 3 rounds of chain extension (PubMed:11251290, PubMed:15489970, PubMed:28106181). After the first and second rounds methyl-transfer occurs, and in all rounds of extension the ketoreductase and dehydratase are active (PubMed:11251290, PubMed:15489970, PubMed:28106181). The enoyl reductase and C-MeT of pks1 are not active in the final round of extension (PubMed:11251290, PubMed:15489970, PubMed:28106181). The acetyltransferase M4 appears to have a broad substrate selectivity for its acyl CoA substrate, allowing the in vitro synthesis of novel squalestatins (Probable). The biosynthesis of SQS1 requires several oxidative steps likely performed by oxidoreductases M1, R1 and R2 (Probable). Finally, in support of the identification of the cluster as being responsible for SQS1 production, the cluster contains a gene encoding a putative squalene synthase (SS) R6, suggesting a likely mechanism for self-resistance (Probable).
Q704Y9 beta-lactamase (EC 3.5.2.6) from Morganella morganii subsp. morganii (see paper)
25% identity, 59% coverage
MAV_1709 carboxylesterase, putative from Mycobacterium avium 104
28% identity, 49% coverage
- The DosR regulon of <i>Mycobacterium avium</i> and adaptation to hypoxia
Belardinelli, Frontiers in cellular and infection microbiology 2025 - “...dosRS vs WT MAH11 B6K05_008010 Short peptide No -0.05 -4.16 -3.20 -3.66 No No B6K05_008015 MAV_1709 Class A beta-lactamase-related serine hydrolase No -0.31 -4.15 -4.01 -4.23 MAB_0853 No Rv2463 (lipP) No B6K05_008020 MAV_1710 tRNA-Gly No -0.13 -2.74 -3.66 -3.31 MAB_t5025c No glyV No B6K05_009065 MAV_2101 Aldehyde...”
CYPRO_0566 serine hydrolase from Cyclonatronum proteinivorum
34% identity, 21% coverage
SCO5660 secreted peptidase from Streptomyces coelicolor A3(2)
28% identity, 50% coverage
- Streptomyces coelicolor strains lacking polyprenol phosphate mannose synthase and protein O-mannosyl transferase are hyper-susceptible to multiple antibiotics
Howlett, Microbiology (Reading, England) 2018 - “...PG deacetylase ( sco6178 ), a putative AmpC lactamase/ d -alanyl- d -alanine carboxypeptidase ( sco5660 ), a putative d -alanyl- d -alanine dipeptidase ( sco1396 ) and a putative murein dd -endopeptidase ( sco0543 ). Enriched GO terms did not include cell envelope biogenesis, and...”
- Genome-wide dynamics of a bacterial response to antibiotics that target the cell envelope
Hesketh, BMC genomics 2011 - “...moenomycin, but repressed by vancomycin. Vancomycin and bacitracin strongly induced both SCO5487 (amidase family) and SCO5660 (carboxypeptidase family), while moenomycin up-regulated only the former of these two genes. Septum synthesis and localisation is a specialised aspect of cell wall biosynthesis important for cell division and sporulation...”
- Cell wall hydrolases affect germination, vegetative growth, and sporulation in Streptomyces coelicolor
Haiser, Journal of bacteriology 2009 - “...SCO3408, SCO3774, SCO3811, SCO4439, SCO4847, SCO5467, SCO5660, SCO6131, SCO6489, SCO7050, SCO7607 SCO2835, SCO3368, SCO3949, SCO4082, SCO4132, SCO4561, SCO4672,...”
- The twin-arginine translocation pathway is a major route of protein export in Streptomyces coelicolor
Widdick, Proceedings of the National Academy of Sciences of the United States of America 2006 - “...signal peptides of three S. coelicolor proteins: SCO3053, SCO5660, and SCO6199. No extracellular agarase activity could be detected when the mature portion of...”
- “...assay was verified by using signal peptides from SCO3053, SCO5660, and SCO6199, which were included as negative controls because they lack twin arginines in the...”
ABB33_03240 serine hydrolase domain-containing protein from Stenotrophomonas acidaminiphila
40% identity, 23% coverage
H5V6X6 Beta-lactamase from Atlantibacter hermannii NBRC 105704
31% identity, 28% coverage
- Metaproteome analysis of endodontic infections in association with different clinical conditions.
Provenzano, PloS one 2013 - “...Proteolysis Post-treatment (NaOCl) Microbial resistance/survival TetR family transcriptional regulator I5BER7 Antibiotic resistance Initial (asymptomatic) Beta-lactamase H5V6X6 Antibiotic resistance Initial (asymptomatic) Anti-sigma F factor SP2AB_BACSU Stress response Initial (asymptomatic) 60 kDa chaperonin (GroEL - HSP 60) CH60_NEIFL (+6) Stress response, virulence Initial (asymptomatic) Alkyl hydroperoxide reductase A7NHN0...”
CC3086 conserved hypothetical protein from Caulobacter crescentus CB15
27% identity, 39% coverage
- Transcriptional profiling of Caulobacter crescentus during growth on complex and minimal media
Hottes, Journal of bacteriology 2004 - “...salR CC3062, thiamine biosynthesis protein, apbE CC3086, beta-lactamase, putativea Uncharacterized CC0027, CC0669, CC0846, CC1520, CC2160, CC2193, CC3059,...”
C9Z785 Putative hydrolase from Streptomyces scabiei (strain 87.22)
30% identity, 38% coverage
KPK_1541 beta-lactamase from Klebsiella pneumoniae 342
29% identity, 37% coverage
- Complete genome sequence of the N2-fixing broad host range endophyte Klebsiella pneumoniae 342 and virulence predictions verified in mice
Fouts, PLoS genetics 2008 - “...for quinolone, sulfonamide, rifampin and macrolide antibiotics. The genome encodes 4 bona fide beta-lactamase genes (KPK_1541, KPK_2697, KPK_2780 and KPK_2800), 7 genes in the metallo-beta-lactamase family and one beta-lactam resistance protein ( blr , KPK_2388). Of these, KPK_2780 and KPK_2800 are identical and are part of...”
- “...to the previously described chromosomally encoded class A beta-lactamase, SHV-1 [72] . Two additional CDSs, KPK_1541 and KPK_2697, are both predicted to encode class C beta-lactamases (matching COG1680). Kp342 encodes ramA (KPK_4028), a gene previously identified in K. pneumoniae that confers resistance to chloramphenicol, tetracycline, nalidixic...”
An09g00950 uncharacterized protein from Aspergillus niger
26% identity, 35% coverage
- Bioinformatic mapping of a more precise Aspergillus niger degradome
Dong, Scientific reports 2021 - “...An09g03800 An12g08560 An13g02620* An13g02790* Prolyl aminopeptidase An11g04730 An16g06070 SE S12 D-Ala-D-Ala carboxypeptidase B D-stereospecific aminopeptidase An09g00950 SXXK Ser, Lys, Tyr An16g06750 SF S24 Repressor LexA / An02g06070 GXSXE Ser, Lys S26A Signal peptidase I Signal peptidase I An09g02730 GXSX(T/Y) / An14g06320 S26B Signalase 21kDa component Signal...”
- “...S11, S12 and S13 5 . The A. niger genome encodes 2 putatively active enzymes (An09g00950 and An16g06750) in family S12 (Table 6 ), and they have been provisionally identified as D-stereospecific aminopeptidases which hydrolyze a wide range of D-alanine derivatives 84 . Like other clan...”
- Genomic analysis of the secretion stress response in the enzyme-producing cell factory Aspergillus niger
Guillemette, BMC genomics 2007 - “...An08g09000 similar to ubiquitin like protein DSK2 1.7 0.4 *1.0 0.1 3.0 0.2 *-1.1 0.2 An09g00950 similar to aminopeptidase DAP Ochrobactrum anthropi 1.6 0.2 *-1.7 0.3 6.2 1.4 *1.1 0.2 Lipid/Inositol metabolism An02g13410 similar to acetyl-coenzyme A transporter AT-1 2.4 0.04 1.8 0.1 5.4 0.3 2.3...”
P94958 Beta-lactamase from Morganella morganii
24% identity, 59% coverage
YP_001530546 beta-lactamase from Candidatus Desulfococcus oleovorans Hxd3
23% identity, 50% coverage
For advice on how to use these tools together, see
Interactive tools for functional annotation of bacterial genomes.
The PaperBLAST database links 798,070 different protein sequences to 1,261,478 scientific articles. Searches against EuropePMC were last performed on May 12 2025.
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