Family Search for PF13810 (DUF4185)
April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.
PF13810 hits 27 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
MAVA5_04920 DUF4185 domain-containing protein from Mycobacterium avium subsp. hominissuis A5
Aligns to 181:509 / 513 (64.1%), covers 100.0% of PF13810, 400.2 bits
MAP0847 hypothetical protein from Mycobacterium avium subsp. paratuberculosis str. k10
Aligns to 207:535 / 539 (61.0%), covers 100.0% of PF13810, 400.1 bits
MAV_1035 hypothetical protein from Mycobacterium avium 104
MAP_0847 DUF4185 domain-containing protein from Mycobacterium avium subsp. paratuberculosis K-10
Aligns to 195:523 / 527 (62.4%), covers 100.0% of PF13810, 400.1 bits
- FurA contributes to the oxidative stress response regulation of Mycobacterium avium ssp. paratuberculosis
Eckelt, Frontiers in microbiology 2015 - “...protein MAP0130 T MAP0337 Rv1648 (52.83) MAV_0364 (89.63) <0.0001 -6.00 Membrane protein MAP0847* Rv1754c (83.96) MAV_1035 (100) <0.0001 -19.77 Conserved protein PE MAP1003c Rv1040c (75.55) MAV_1179 (54.03) <0.0001 -12.40 PPE family protein N MAP1203 Rv1477 (76.48) MAV_3301 (91.13) <0.0001 -11.63 Invasion protein M MAP1204 Rv1478 (72.76)...”
- Acanthamoeba castellanii as a Screening Tool for Mycobacterium avium Subspecies paratuberculosis Virulence Factors with Relevance in Macrophage Infection
Phillips, Microorganisms 2020 - “...18D6 MAP_0338c Low No DUF772 domain-containing protein 3C5 MAP_0824/aurF Low No Metalloenzyme P-aminobenzoate N-oxygenase 4F7 MAP_0847 Low No DUF4185 domain-containing protein 7C12 MAP_0949 High Yes Hypothetical protein with EAL domain/Diguanylate cyclase domain 7E1 MAP_1024/cysM2 High No Cystathionine beta-synthase 14C8 MAP_1076 Low N/A Hypothetical protein 2G12 MAP_1133...”
- Deciphering the virulence factors of the opportunistic pathogen Mycobacterium colombiense
Gonzalez-Perez, New microbes and new infections 2016 - “...Mcol virulence factors we foundseveral genes homologous to the M.avium subsp. paratuberculosis str. k10 genome: MAP_0847, MAP_1945c, MAP_0092, MAP_3697c, MAP_1909, MAP_3223c, MAP_0908c, MAP_2811c and MAP_2636. According to Basic Local Alignment Search Tool (BLAST) searches, these genes (except MAP_1909 ) are likely not to be present in...”
Rv1754c hypothetical protein from Mycobacterium tuberculosis H37Rv
MT1797 hypothetical protein from Mycobacterium tuberculosis CDC1551
Aligns to 233:559 / 563 (58.1%), covers 99.7% of PF13810, 399.3 bits
- Identification of D-arabinan-degrading enzymes in mycobacteria
Al-Jourani, Nature communications 2023 - “...at least two DUF4185s that fall into distinct phylogenetic groupings. In M. tuberculosis these are Rv1754c and Rv3707c. Beyond these two conserved DUF4185 genes, some species have additional DUF4185 members. For example, many Mycobacterium abscessus strains encode at least three distinct members whilst M. smegmatis mc...”
- “...4360, 4365, 2107 and 6255). Based on sequence analysis, MSMEG_2107 and MSMEG_6255 are homologs of Rv1754c and Rv3707c, respectively, while the remainder show greater diversity (Figure S8 ). A distant homolog of Rv3707c from Mycobacterium abscessus , Ga0069448_1118 (hereafter referred to as Mab 4185 ), was...”
- MtrA modulates Mycobacterium tuberculosis cell division in host microenvironments to mediate intrinsic resistance and drug tolerance
Peterson, Cell reports 2023 - “...). A handful of other genes ( Rv1075c , lipU , ctpD , ripB , Rv1754c , and desA3 ) were significantly downregulated with mtrA knockdown but not represented in the model and could also be bona fide regulatory targets of MtrA. Further, the isoniazid-induced genes...”
- In-depth Analysis of IS6110 Genomic Variability in the Mycobacterium tuberculosis Complex
Comín, Frontiers in microbiology 2022 - “...of Haarlem strains have an IS inserted in Rv0403c (483,296, ), Rv2336 (2,610,861, +), and Rv1754c genes (1,986,622, +), and 89% have a copy in Rv0963c (1,075,948, ). We succeeded in the amplification of 10 IS 6110 copies in Rv0403c in different strains, five copies in...”
- “...Reyes et al., 2012 ) that more than 96% strains have an IS inserted in Rv1754c (1,986,623, ), more than 95% have it inserted in lpqQ:Rv0836c (932,202, ), and more than 90% have it inserted in Rv3113 (3,480,371, +). Based on these findings, we analysed four...”
- Analysis of the twenty-six largest outbreaks of tuberculosis in Aragon using whole-genome sequencing for surveillance purposes
Comín, Scientific reports 2022 - “.... For the L4.3 strains, three copies were present in all the strains studied lpqQ:Rv0836c, Rv1754c (RD152 area), and Rv3113 . Moreover, copies located at cut1 , ppe38 and MT3426:MT3427 were frequent. For L4.1.2.1, five copies located at Rv0403c , Rv2336 , Rv1754c , Rv0963c and...”
- “...932,204 aac lpqQ:Rv0836c Reverse 1,987,457 1,986,625 plcD/Rv1754c Reverse 1,989,080 1,986,625 cut1/Rv1754c Reverse 1,986,623 1,986,625 aac Rv1754c Reverse 1,989,080 1,979,923* cgc cut1 Reverse 81.8% strains 1,989,080 1,986,625 cut1/Rv1754c Reverse 2,633,843 2,633,841 ctc ppe38 Reverse 45.5% strains 3,665,157* 3,665,159* caa MT3426:MT3427 Reverse 91% strains 3,665,159* 3,668,981* MT3426:MT3427/IS1547 Forward...”
- Mining the human gut microbiome identifies mycobacterial d-arabinan degrading enzymes
Al-Jourani, 2022 - Intragenic Distribution of IS6110 in Clinical Mycobacterium tuberculosis Strains: Bioinformatic Evidence for Gene Disruption Leading to Underdiagnosed Antibiotic Resistance
Antoine, Microbiology spectrum 2021 - “...Rv3113 ; 3, Rv3128c ; 4, idsB ; 5, Rv1371 ; 6, Rv963c ; 7, Rv1754c ; 8, Rv2016 ; 9, ctpD ; 10, mmpL12 ). The image was generated using Circos ( 39 ). (B) Bar chart showing the frequency of clinical isolates with different...”
- TB or not to be: what specificities and impact do antibodies have during tuberculosis?
Hermann, Oxford open immunology 2021 - “...x Rv1651c PE-PGRS family protein PE_PGRS30 x IgA antigen targets Rv1411c Conserved lipoprotein LprG x Rv1754c Conserved protein x Rv0983 Probable serine protease PepD x Rv0052 Conserved protein x Rv2922c Probable chromosome partition protein Smc x Rv0509 Probable glutamyl-tRNA reductase HemA x Rv1566c Possible Inv protein...”
- Circulation of M. tuberculosis Beijing genotype in Latin America and the Caribbean
Cerezo-Cortés, Pathogens and global health 2019 (secret) - More
- Clinical relevance of Mycobacterium tuberculosis plcD gene mutations
Yang, American journal of respiratory and critical care medicine 2005 - “...insertion of dual orientations at the right-hand-side end of gene MT1797 followed by the deletion of MT1798 and a partial plcD deletion of 171 to 689 bp long,...”
MMAR_2586 hypothetical protein from Mycobacterium marinum M
Aligns to 160:485 / 489 (66.7%), covers 99.7% of PF13810, 398.7 bits
- Essential Role of the ESX-5 Secretion System in Outer Membrane Permeability of Pathogenic Mycobacteria
Ates, PLoS genetics 2015 - “...19 4 8 MMAR_5047 PPE 50 6 0 8 MMAR_1547 PE-PGRS 25 3 2 8 MMAR_2586 Conserved secreted 212 27 213 8 MMAR_3410 Pyruvate kinase 70 9 49 7 MMAR_0559 Conserved exported 43 6 11 7 * Average normalized spectral counts from two biological replicates Cell...”
- “...ESX-5 or they are together responsible. The three other restored proteins are MMAR_4153, MMAR_3410 and MMAR_2586, all of which are not essential, do not have a T7S signal [ 47 ] and have not been linked to ESX-5 secretion previously. Because our analysis of surface-associated proteins...”
ML2491 hypothetical protein from Mycobacterium leprae TN
Aligns to 5:329 / 333 (97.6%), covers 100.0% of PF13810, 390.5 bits
MSMEG_2107 hypothetical protein from Mycobacterium smegmatis str. MC2 155
Aligns to 154:482 / 486 (67.7%), covers 100.0% of PF13810, 386.9 bits
- Identification of D-arabinan-degrading enzymes in mycobacteria
Al-Jourani, Nature communications 2023 - “...mc 2 155 encodes five (MSMEG_4352, 4360, 4365, 2107 and 6255). Based on sequence analysis, MSMEG_2107 and MSMEG_6255 are homologs of Rv1754c and Rv3707c, respectively, while the remainder show greater diversity (Figure S8 ). A distant homolog of Rv3707c from Mycobacterium abscessus , Ga0069448_1118 (hereafter referred...”
- “...While we were unable to produce soluble Rv1754c, we successfully produced the M. smegmatis homolog (MSMEG_2107), which demonstrated activity against LAM, but not AG (Fig. 4C/D and Figure S10 ). DUF4185 sub-clades have distinct substrate specificities To further probe the substrate specificity of these enzymes and...”
- Mining the human gut microbiome identifies mycobacterial d-arabinan degrading enzymes
Al-Jourani, 2022
8hhvA Endo-alpha-d-arabinanase endoma1 from microbacterium arabinogalactanolyticum (see paper)
Aligns to 17:321 / 479 (63.7%), covers 99.7% of PF13810, 382.7 bits
- Ligand: calcium ion (8hhvA)
MIAR_33230 DUF4185 domain-containing protein from Microbacterium arabinogalactanolyticum
Aligns to 49:353 / 511 (59.7%), covers 99.7% of PF13810, 382.4 bits
- Identification and characterization of endo-α-, exo-α-, and exo-β-D-arabinofuranosidases degrading lipoarabinomannan and arabinogalactan of mycobacteria
Shimokawa, Nature communications 2023 - “...growth phase was measured by quantitative real-time PCR (qRT-PCR). The four DUF4185 (GH183) genes (MIAR_32220, MIAR_33230, MIAR_33270, and MIAR_33320) and a GH116 gene (MIAR_33170) were strongly induced by d -Ara and MCE (>10-fold increase compared with Glc condition). The gene for an SBP of the putative...”
- “...and MIAR_33320) did not express as soluble proteins in Escherichia coli , pure recombinant proteins MIAR_33230 (EndoMA1) and MIAR_33270 (EndoMA2) were obtained (Supplementary Fig. 5a, b ). Similar to that of the native enzyme, EndoMA1 and EndoMA2 showed degradation activity towards MtLAM and MsAG (Figs. 1c,...”
HMPREF9455_02481 DUF4185 domain-containing protein from Dysgonomonas gadei ATCC BAA-286
Aligns to 156:464 / 474 (65.2%), covers 99.4% of PF13810, 317.5 bits
HMPREF9455_02480 DUF4185 domain-containing protein from Dysgonomonas gadei ATCC BAA-286
Aligns to 62:370 / 374 (82.6%), covers 99.7% of PF13810, 315.2 bits
MIAR_33320 DUF4185 domain-containing protein from Microbacterium arabinogalactanolyticum
Aligns to 60:375 / 383 (82.5%), covers 99.0% of PF13810, 286.4 bits
- Identification and characterization of endo-α-, exo-α-, and exo-β-D-arabinofuranosidases degrading lipoarabinomannan and arabinogalactan of mycobacteria
Shimokawa, Nature communications 2023 - “...measured by quantitative real-time PCR (qRT-PCR). The four DUF4185 (GH183) genes (MIAR_32220, MIAR_33230, MIAR_33270, and MIAR_33320) and a GH116 gene (MIAR_33170) were strongly induced by d -Ara and MCE (>10-fold increase compared with Glc condition). The gene for an SBP of the putative ABC transporter (MIAR_33310)...”
- “...moderate amino acid sequence similarity (2235%) (Supplementary Fig. 4 ). Although two proteins (MIAR_33220 and MIAR_33320) did not express as soluble proteins in Escherichia coli , pure recombinant proteins MIAR_33230 (EndoMA1) and MIAR_33270 (EndoMA2) were obtained (Supplementary Fig. 5a, b ). Similar to that of the...”
MIAR_33270 DUF4185 domain-containing protein from Microbacterium arabinogalactanolyticum
Aligns to 54:364 / 369 (84.3%), covers 97.1% of PF13810, 235.7 bits
- Identification and characterization of endo-α-, exo-α-, and exo-β-D-arabinofuranosidases degrading lipoarabinomannan and arabinogalactan of mycobacteria
Shimokawa, Nature communications 2023 - “...phase was measured by quantitative real-time PCR (qRT-PCR). The four DUF4185 (GH183) genes (MIAR_32220, MIAR_33230, MIAR_33270, and MIAR_33320) and a GH116 gene (MIAR_33170) were strongly induced by d -Ara and MCE (>10-fold increase compared with Glc condition). The gene for an SBP of the putative ABC...”
- “...not express as soluble proteins in Escherichia coli , pure recombinant proteins MIAR_33230 (EndoMA1) and MIAR_33270 (EndoMA2) were obtained (Supplementary Fig. 5a, b ). Similar to that of the native enzyme, EndoMA1 and EndoMA2 showed degradation activity towards MtLAM and MsAG (Figs. 1c, d and 3...”
MSMEG_4352 putative secreted protein from Mycobacterium smegmatis str. MC2 155
Aligns to 14:339 / 353 (92.4%), covers 99.7% of PF13810, 233.8 bits
YP_001537335 hypothetical protein from Salinispora arenicola CNS205
Aligns to 41:368 / 371 (88.4%), covers 98.4% of PF13810, 230.1 bits
NOTJ_ASPSM / E1ACQ5 Notoamide biosynthesis cluster protein J from Aspergillus sp. (strain MF297-2) (see 3 papers)
Aligns to 36:357 / 370 (87.0%), covers 95.5% of PF13810, 210.1 bits
- function: Part of the gene cluster that mediates the biosynthesis of notoamide, a fungal indole alkaloid that belongs to a family of natural products containing a characteristic bicyclo[2.2.2]diazaoctane core (PubMed:20722388). The first step of notoamide biosynthesis involves coupling of L-proline and L-tryptophan by the bimodular NRPS notE, to produce cyclo-L-tryptophan-L-proline called brevianamide F (PubMed:20722388). The reverse prenyltransferase notF then acts as a deoxybrevianamide E synthase and converts brevianamide F to deoxybrevianamide E via reverse prenylation at C-2 of the indole ring leading to the bicyclo[2.2.2]diazaoctane core (PubMed:20722388). Deoxybrevianamide E is further hydroxylated at C-6 of the indole ring, likely catalyzed by the cytochrome P450 monooxygenase notG, to yield 6- hydroxy-deoxybrevianamide E (Probable). 6-hydroxy-deoxybrevianamide E is a specific substrate of the prenyltransferase notC for normal prenylation at C-7 to produce 6-hydroxy-7-prenyl-deoxybrevianamide, also called notoamide S (PubMed:20722388). As the proposed pivotal branching point in notoamide biosynthesis, notoamide S can be diverted to notoamide E through an oxidative pyran ring closure putatively catalyzed by either notH cytochrome P450 monooxygenase or the notD FAD- linked oxidoreductase (Probable). This step would be followed by an indole 2,3-epoxidation-initiated pinacol-like rearrangement catalyzed by the notB FAD-dependent monooxygenase leading to the formation of notoamide C and notoamide D (PubMed:22188465). On the other hand notoamide S is converted to notoamide T by notH (or notD), a bifunctional oxidase that also functions as the intramolecular Diels- Alderase responsible for generation of (+)-notoamide T (Probable). To generate antipodal (-)-notoaminide T, notH' (or notD') in Aspergillus versicolor is expected to catalyze a Diels-Alder reaction leading to the opposite stereochemistry (Probable). The remaining oxidoreductase notD (or notH) likely catalyzes the oxidative pyran ring formation to yield (+)-stephacidin A (Probable). The FAD-dependent monooxygenase notI is highly similar to notB and is predicted to catalyze a similar conversion from (+)-stephacidin A to (-)-notoamide B via the 2,3- epoxidation of (+)-stephacidin A followed by a pinacol-type rearrangement (Probable). Finally, it remains unclear which enzyme could be responsible for the final hydroxylation steps leading to notoamide A and sclerotiamide (Probable). The fonction of notJ in the notoamide biosynthesis has not been determined yet (Probable).
NOTJ_ASPVE / L7WU85 Notoamide biosynthesis cluster protein J' from Aspergillus versicolor (see 3 papers)
Aligns to 36:343 / 362 (85.1%), covers 95.5% of PF13810, 203.2 bits
- function: Part of the gene cluster that mediates the biosynthesis of notoamide, a fungal indole alkaloid that belongs to a family of natural products containing a characteristic bicyclo[2.2.2]diazaoctane core (PubMed:23213353). The first step of notoamide biosynthesis involves coupling of L-proline and L-tryptophan by the bimodular NRPS notE', to produce cyclo-L-tryptophan-L-proline called brevianamide F (Probable). The reverse prenyltransferase notF' then acts as a deoxybrevianamide E synthase and converts brevianamide F to deoxybrevianamide E via reverse prenylation at C-2 of the indole ring leading to the bicyclo[2.2.2]diazaoctane core (PubMed:22660767) (Probable). Deoxybrevianamide E is further hydroxylated at C-6 of the indole ring, likely catalyzed by the cytochrome P450 monooxygenase notG', to yield 6-hydroxy-deoxybrevianamide E (Probable). 6-hydroxy-deoxybrevianamide E is a specific substrate of the prenyltransferase notC' for normal prenylation at C-7 to produce 6-hydroxy-7-prenyl-deoxybrevianamide, also called notoamide S (Probable). As the proposed pivotal branching point in notoamide biosynthesis, notoamide S can be diverted to notoamide E through an oxidative pyran ring closure putatively catalyzed by either notH' cytochrome P450 monooxygenase or the notD' FAD-linked oxidoreductase (Probable). This step would be followed by an indole 2,3-epoxidation-initiated pinacol-like rearrangement catalyzed by the notB' FAD-dependent monooxygenase leading to the formation of notoamide C and notoamide D (Probable). On the other hand notoamide S is converted to notoamide T by notH' (or notD'), a bifunctional oxidase that also functions as the intramolecular Diels-Alderase responsible for generation of (-)-notoamide T (Probable). To generate antipodal (+)-notoaminide T, notH (or notD) in Aspergillus strain MF297-2 is expected to catalyze a Diels-Alder reaction leading to the opposite stereochemistry (Probable). The remaining oxidoreductase notD' (or notH') likely catalyzes the oxidative pyran ring formation to yield (-)-stephacidin A (Probable). The FAD-dependent monooxygenase notI' is highly similar to notB' and is predicted to catalyze a similar conversion from (-)-stephacidin A to (+)-notoamide B via the 2,3- epoxidation of (-)-stephacidin A followed by a pinacol-type rearrangement (Probable). Finally, it remains unclear which enzyme could be responsible for the final hydroxylation steps leading to notoamide A and sclerotiamide (Probable). The fonction of notJ' in the notoamide biosynthesis has not been determined yet (Probable).
MSMEG_6255 hypothetical protein from Mycobacterium smegmatis str. MC2 155
Aligns to 43:360 / 368 (86.4%), covers 98.4% of PF13810, 197.8 bits
- Identification of D-arabinan-degrading enzymes in mycobacteria
Al-Jourani, Nature communications 2023 - “...155 encodes five (MSMEG_4352, 4360, 4365, 2107 and 6255). Based on sequence analysis, MSMEG_2107 and MSMEG_6255 are homologs of Rv1754c and Rv3707c, respectively, while the remainder show greater diversity (Figure S8 ). A distant homolog of Rv3707c from Mycobacterium abscessus , Ga0069448_1118 (hereafter referred to as...”
- Mining the human gut microbiome identifies mycobacterial d-arabinan degrading enzymes
Al-Jourani, 2022 - Targeting drug tolerance in mycobacteria: a perspective from mycobacterial biofilms
Islam, Expert review of anti-infective therapy 2012 - “...N5,N10-methylene-tetrahydromethanopterin reductase (mer), putative Rv3093c MSMEG_6030 P450 heme-thiolate protein, putative Rv1777 MSMEG_6060 Predicted permease superfamily MSMEG_6255 Conserved hypothetical protein Rv3707c MSMEG_6476 Putative large secreted protein MSMEG_6487 Amidohydrolase family superfamily MSMEG_6540 Virulence factor Rv0589 MSMEG_6555 Transcriptional regulator, TetR family, putative MSMEG_6567 COG2837: predicted iron-dependent peroxidase MSMEG_6569 Uncharacterized...”
RHA1_ro08121 possible peptidase/ glycoside hydrolase from Rhodococcus sp. RHA1
Aligns to 5:320 / 823 (38.4%), covers 97.7% of PF13810, 195.7 bits
- Mycobacteriophage Lysin B is a novel mycolylarabinogalactan esterase
Payne, Molecular microbiology 2009 - “...Fig. S3C ). Myrna gp244 does have similarity to the N-terminal segment of Rhodococcus protein (RHA1_ro08121) that contains both peptidase and muramidase motifs in its C-terminus, and Myrna gp244 may play a yet undefined role in lysis. We also note that although Proprionobacterium acnes phage PA6...”
Cp1002B_0207 DUF4185 domain-containing protein from Corynebacterium pseudotuberculosis
Aligns to 81:392 / 468 (66.7%), covers 97.4% of PF13810, 187.7 bits
- Rapidly evolving changes and gene loss associated with host switching in Corynebacterium pseudotuberculosis
Viana, PloS one 2018 - “...Transport PiCp5 - Cp31_2169/ Cp1002B_0189 X Hypothetical protein 1 (no domains) Unknown PiCp3 - Cp31_0206/ Cp1002B_0207 X X Sialidase 1 Virulence PiCp13 [ 65 , 66 ] Cp31_0638/ Cp1002B_2037 X Dihydrofolate reductase ( folA ) Metabolism - [ 67 ] Cp31_0945/ Cp1002B_1731 X Coenzyme PQQ biosynthesis...”
- “...208 13 (6.25) - - - - - - Hypothetical protein 1 (no domains) Cp31_0206/ Cp1002B_0207 465 - 5 (1.08) 5 (1.08) - - - - Sialidase 1 Cp31_0638/ Cp1002B_2037 175 - 1 (0.57) - - - - - Dihydrofolate reductase ( folA ) Cp31_0945/ Cp1002B_1731...”
D9QDW8 DUF4185 domain-containing protein from Corynebacterium pseudotuberculosis (strain C231)
CpC231_0196 DUF4185 domain-containing protein from Corynebacterium pseudotuberculosis C231
Aligns to 81:392 / 468 (66.7%), covers 97.4% of PF13810, 187.5 bits
- Changes in protein abundance are observed in bacterial isolates from a natural host
Rees, Frontiers in cellular and infection microbiology 2015 - “...Uncharacterized protein 2.842 * General function prediction only D9QDU5 CpC231_0173 CpC231_0173 Surface antigen 1.217 * D9QDW8 CpC231_0196 CpC231_0196 Uncharacterized protein 0.537 0.765 1.913 * D9QDZ8 cspA CpC231_0227 Cold-shock protein 0.223 0.090 1.352 * Transcription D9QE05 CpC231_0234 CpC231_0234 Secreted hydrolase 0.139 0.448 1.603 * Amino acid transport...”
- Identification of membrane-associated proteins with pathogenic potential expressed by Corynebacterium pseudotuberculosis grown in animal serum
Raynal, BMC research notes 2018 - “...resistance D domain-containing protein/Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG) copD CpC231_1627 12 Uncharacterized protein CpC231_0196 13 Uncharacterized protein CpC231_0252 14 Uncharacterized protein CpC231_1761 15 Uncharacterized protein CpC231_1862 16 Uncharacterized protein CpC231_1904 17 Uncharacterized protein CpC231_2052 18 Uncharacterized protein CpC231_0195 19 Uncharacterized protein CpE19_0622 20 Uncharacterized...”
- Changes in protein abundance are observed in bacterial isolates from a natural host
Rees, Frontiers in cellular and infection microbiology 2015 - “...protein 2.842 * General function prediction only D9QDU5 CpC231_0173 CpC231_0173 Surface antigen 1.217 * D9QDW8 CpC231_0196 CpC231_0196 Uncharacterized protein 0.537 0.765 1.913 * D9QDZ8 cspA CpC231_0227 Cold-shock protein 0.223 0.090 1.352 * Transcription D9QE05 CpC231_0234 CpC231_0234 Secreted hydrolase 0.139 0.448 1.603 * Amino acid transport and...”
- The Corynebacterium pseudotuberculosis in silico predicted pan-exoproteome
Santos, BMC genomics 2012 - “...CpC231_0025 pld Phospholipase D SEC CP001829 ADL09532 CpC231_0033 pbpA Penicillin-binding protein A SEC CP001829 ADL09691 CpC231_0196 Hypothetical protein SEC CP001829 ADL09697 CpC231_0203 pbpB Penicillin binding protein transpeptidase SEC CP001829 ADL09852 CpC231_0360 oppA1 Oligopeptide-binding protein oppA PSE E CP001829 ADL09871 CpC231_0379 Hypothetical protein SEC CP001829 ADL09872 CpC231_0380...”
Cp31_0206 DUF4185 domain-containing protein from Corynebacterium pseudotuberculosis 31
Aligns to 81:392 / 468 (66.7%), covers 97.4% of PF13810, 186.6 bits
- Rapidly evolving changes and gene loss associated with host switching in Corynebacterium pseudotuberculosis
Viana, PloS one 2018 - “...). Sialidases have been associated with virulence in Corynebacterium [ 65 , 78 ], and Cp31_0206 is the one of two genes in this group that is located in a known pathogenicity island. The role of beta lactamases in drug resistance is well known, and the...”
- “...These include genes related to nutrition and evasion of the host immune response (Sialidase 1, Cp31_0206), acetyl-CoA and DNA synthesis, fermentation ( cobS , Cp31_1309), an adhesion (Adhesin 1, Cp31_2279), and three genes of undetermined function (Cp31_1724, Cp31_0109 and Cp31_2015). Several of these genes (Cp31_0109, Cp31_2015...”
DIP2017 Putative secreted protein from Corynebacterium diphtheriae NCTC 13129
Aligns to 72:376 / 423 (72.1%), covers 98.1% of PF13810, 183.1 bits
Rv3707c hypothetical protein from Mycobacterium tuberculosis H37Rv
Aligns to 8:326 / 336 (94.9%), covers 98.4% of PF13810, 170.9 bits
- Identification of D-arabinan-degrading enzymes in mycobacteria
Al-Jourani, Nature communications 2023 - “...two DUF4185s that fall into distinct phylogenetic groupings. In M. tuberculosis these are Rv1754c and Rv3707c. Beyond these two conserved DUF4185 genes, some species have additional DUF4185 members. For example, many Mycobacterium abscessus strains encode at least three distinct members whilst M. smegmatis mc 2 155...”
- “...2107 and 6255). Based on sequence analysis, MSMEG_2107 and MSMEG_6255 are homologs of Rv1754c and Rv3707c, respectively, while the remainder show greater diversity (Figure S8 ). A distant homolog of Rv3707c from Mycobacterium abscessus , Ga0069448_1118 (hereafter referred to as Mab 4185 ), was readily produced...”
- Clinically relevant mutations in the PhoR sensor kinase of host-adapted Mycobacterium abscessus isolates impact response to acidic pH and virulence
Belardinelli, Microbiology spectrum 2023 - “...in vivo -induced exported protein whose orthologs in M. bovis BCG and M. tuberculosis ( Rv3707c ) were implicated in the arrest of phagosomal acidification in macrophages and intracellular growth ( 48 , 49 ). The third gene, MAB_4531 , has no ortholog in M. tuberculosis...”
- Mining the human gut microbiome identifies mycobacterial d-arabinan degrading enzymes
Al-Jourani, 2022 - Whole genome sequencing, analyses of drug resistance-conferring mutations, and correlation with transmission of Mycobacterium tuberculosis carrying katG-S315T in Hanoi, Vietnam
Hang, Scientific reports 2019 - “...glmS, hsaA, lprQ, PE23, pks15, pks7, pmmB, rhlE, Rv0121c, Rv1073, Rv1639c, Rv2219, Rv3217c, Rv3254, Rv3660c, Rv3707c, thiL, vapB34 20 No No Yes No No No 35kd_ag, accA3, adhE1, aglA, aldA, alkB, alr, amiB2, amiC, aprA, aroA, aroG, arsA, arsB2, bfrA, bfrB, blaC, cdh, cobN, cut1, cyp139,...”
- The EXIT Strategy: an Approach for Identifying Bacterial Proteins Exported during Host Infection
Perkowski, mBio 2017 - “...exported proteins, we used the hsp60 promoter to constitutively express three of these proteins (Rv1728c, Rv3707c, and Rv3811) with a C-terminal hemagglutinin (HA) tag in M.tuberculosis . Subcellular fractions (cell wall, membrane, and soluble cytoplasm) prepared from these strains were then used to localize these proteins...”
- “...in silico predicted export signal. Three proteins with no in silico predicted export signal (Rv1728c, Rv3707c, and Rv3811) were engineered with C-terminal HA tags and expressed from the constitutive hsp60 promoter in M.tuberculosis . Cells were irradiated, lysed by the use of a French pressure cell...”
- Mycobacterium llatzerense, a waterborne Mycobacterium, that resists phagocytosis by Acanthamoeba castellanii
Delafont, Scientific reports 2017 - “...results were obtained by using the M. llatzerense CLUC14 genome ( Supplementary Table 2 ). Rv3707c, PPE10, Cut2, and GlyA1 were shown to be involved in in phagosome maturation blocking, as suggested by transposition mutagenesis in M. bovis Bacille Calmette-Gurin (BCG); mutant deleted for these genes...”
- “...transcription levels were observed for 8 other genes, namely cut2, esxG, fbpA, phoP, ptpA, ptpB, rv3707c and secA2 . After 8h, all genes except glyA1 and ppe10 were significantly upregulated. Only genes that were upregulated after 2h reached more than 10-times fold changes (fbpA, phoP and...”
- Virulence factors of the Mycobacterium tuberculosis complex
Forrellad, Virulence 2013 - “...on microarray-based screening of a transposon library, Stewart et al. have found that ppe10 , Rv3707c , cut2 and glyA1 , among other genes, were relevant for M. bovis BCG to arrest phagosome acidification following uptake by macrophages. cut2 encodes a protein member of a family...”
- “...member of a family of serine hydroxymethyltransferases. ppe10 encodes a member of PPE family and Rv3707c encodes a conserved hypothetical protein (CHP). Transposon mutants in these genes have shown reduced replication inside macrophages as compared with the parental BCG strain, being these attenuations most pronounced at...”
- Targeting drug tolerance in mycobacteria: a perspective from mycobacterial biofilms
Islam, Expert review of anti-infective therapy 2012 - “...Rv3093c MSMEG_6030 P450 heme-thiolate protein, putative Rv1777 MSMEG_6060 Predicted permease superfamily MSMEG_6255 Conserved hypothetical protein Rv3707c MSMEG_6476 Putative large secreted protein MSMEG_6487 Amidohydrolase family superfamily MSMEG_6540 Virulence factor Rv0589 MSMEG_6555 Transcriptional regulator, TetR family, putative MSMEG_6567 COG2837: predicted iron-dependent peroxidase MSMEG_6569 Uncharacterized BCR MSMEG_6570 Membrane protein,...”
- More
MAB_0346 hypothetical protein from Mycobacterium abscessus ATCC 19977
Aligns to 59:379 / 388 (82.7%), covers 98.4% of PF13810, 157.3 bits
- DS86760016, a Leucyl-tRNA Synthetase Inhibitor, Is Active against Mycobacterium abscessus
Nguyen, Antimicrobial agents and chemotherapy 2023 (secret) - Clinically relevant mutations in the PhoR sensor kinase of host-adapted Mycobacterium abscessus isolates impact response to acidic pH and virulence
Belardinelli, Microbiology spectrum 2023 - “...to adhere to and invade epithelial cells ( 46 , 47 ). The second one, MAB_0346 , encodes an in vivo -induced exported protein whose orthologs in M. bovis BCG and M. tuberculosis ( Rv3707c ) were implicated in the arrest of phagosomal acidification in macrophages...”
- “...in these processes. Of particular interest are secreted proteins (e.g., EsxG, EsxH, Mpt pilin, and MAB_0346) whose homologs in other mycobacteria have been shown to promote intracellular survival. Also intriguing is the finding among PhoP-regulated genes of a number of ORFs encoding putative polysaccharide and fatty...”
MAP0284c hypothetical protein from Mycobacterium avium subsp. paratuberculosis str. k10
Aligns to 228:535 / 540 (57.0%), covers 96.1% of PF13810, 110.1 bits
- Discovery of stable and variable differences in the Mycobacterium avium subsp. paratuberculosis type I, II, and III genomes by pan-genome microarray analysis
Castellanos, Applied and environmental microbiology 2009 - “...LSPp1 MAP2, or LSPp2 MAP0092 to MAP0108 MAP0282c to MAP0284c MAP0387 to MAP0389 MAP4, or LSPp4 MAP0850c to MAP0866 MAP5, or LSPp5 MAP0956 to MAP0967 MAP1231 to...”
- “...CACGCCGACGCC MAP092 to MAP0103c/ MAP0104 MAP0280 to MAP0284c CGAGGTCGTCCGCT CGGACGGGCGG MAP0758 to MAP0774c MAP0850 to MAP0866 69.61 GCGCAGCGCGTCG MAP0957 to...”
- Comparative genomic analysis of Mycobacterium avium subspecies obtained from multiple host species
Paustian, BMC genomics 2008 - “...MAP0072c MAP0076 HOM (5835cc, 5836cc) 1 MAP0092 MAP0108 HOM, AV-SI MAP_RD1 LSPP1 MAP-1 2 MAP0282c MAP0284c HOM, AV-SI LSPP2 MAP-2 3 MAP0387 MAP0389 HOM, AV-SI LSPP3 MAP-3 4 MAP0746 MAP0766c AV-SI (6007, 6049) 5 MAP0850c MAP0866 HOM, AV-SI RDA I130 MAP_RD2 LSPP4 MAP-4 6 MAP0956 MAP0967...”
- Comparative genomic hybridizations reveal genetic regions within the Mycobacterium avium complex that are divergent from Mycobacterium avium subsp. paratuberculosis isolates
Paustian, Journal of bacteriology 2005 - “...MAP0101 MAP0102 MAP0103c MAP0106c MAP0159c MAP0253 MAP0284c MAP0338c MAP0388 MAP0428 MAP0589c MAP0664c MAP0832c MAP0850c MAP0851 MAP0856c MAP0859c MAP0866...”
MIAR_33220 DUF4185 domain-containing protein from Microbacterium arabinogalactanolyticum
Aligns to 34:343 / 366 (84.7%), covers 79.6% of PF13810, 52.6 bits
Or search for genetic data about PF13810 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory