Family Search for PF01947 (Rv2949c-like)
April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.
Running HMMer for PF01947
PF01947 hits 9 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
sll1797 / P73322 chorismate lyase (EC 4.1.3.40) from Synechocystis sp. (strain PCC 6803 / Kazusa) (see paper)
P73322 chorismate lyase (EC 4.1.3.40) from Synechocystis sp. (see paper)
sll1797 ycf21 gene product from Synechocystis sp. PCC 6803
Aligns to 1:130 / 139 (93.5%), covers 85.9% of PF01947, 169.2 bits
- Identification of the key functional genes in salt-stress tolerance of Cyanobacterium Phormidium tenue using in silico analysis
Shahbazi, 3 Biotech 2021 - “...slr1670 xerC, slr0733 unknown protein, sll1755 ycf21, sll1797 slr0236 prqR, slr0895 hypothetical protein, slr1287 bioD, slr0523 rre8, slr1760 hypothetical...”
- “...slr0957 hypothetical protein, slr0320 ssyA, sll1383 ycf21, sll1797 probable pseudouridine synthase, slr0612 ndhB, slr1743 sds, slr0611 rre17, sll2012 lilA,...”
- Chorismate pyruvate-lyase and 4-hydroxy-3-solanesylbenzoate decarboxylase are required for plastoquinone biosynthesis in the cyanobacterium Synechocystis sp. PCC6803
Pfaff, The Journal of biological chemistry 2014 - “...genes likely encoding a chorismate pyruvate-lyase (sll1797) and two 4-hydroxy-3-solanesylbenzoate decarboxylases (slr1099 and sll0936). The functions of the...”
- “...singlegene knock-out mutants. Our results demonstrate that sll1797 encodes a chorismate pyruvate-lyase. In the respective knockout mutant, plastoquinone was...”
- 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 - “...0.22 3.55 1.04 1.26 0.11 ycf21 ycf34 ycf38 sll1797 ssr1425 sll0760 sll0086 sll0088 sll0141 sll0157 sll0185 sll0217 sll0297 sll0314 sll0355 sll0470 sll0528...”
AF1396 conserved hypothetical protein from Archaeoglobus fulgidus DSM 4304
Aligns to 9:161 / 162 (94.4%), covers 99.3% of PF01947, 143.4 bits
- A new approach to assess and predict the functional roles of proteins across all known structures
Julfayev, Journal of structural and functional genomics 2011 - “...the PDB. Two examples are a role in the regulation of transcription for the protein AF1396 from Archaeoglobus fulgidus and a role in RNA metabolism for the protein psuG from Thermotoga maritima. Electronic supplementary material The online version of this article (doi:10.1007/s10969-011-9105-3) contains supplementary material, which...”
- “...organism [ 54 ]. A third prediction is for the crystal structure of the protein AF1396 from Archaeoglobus fulgidus , PDB+2nwi. It is predicted to participate in the process of regulation of DNA-dependent transcription, GO+0006355. The protein has been demonstrated to be remotely related in sequence,...”
MJ0807 / Q58217 chorismate lyase (EC 4.1.3.40) from Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (see paper)
Aligns to 33:178 / 184 (79.3%), covers 96.0% of PF01947, 75.8 bits
bmp6 / A0A1S6M1P0 chorismate lyase (EC 4.1.3.40) from Hormoscilla spongeliae SP12 (see 2 papers)
Aligns to 27:182 / 192 (81.2%), covers 96.0% of PF01947, 59.9 bits
Mb2973c / Q7TXK6 chorismate lyase (EC 4.1.3.40) from Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97) (see paper)
PHBS_MYCTU / P9WIC5 Chorismate pyruvate-lyase; 4-HB synthase; p-hydroxybenzoic acid synthase; EC 4.1.3.40 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see paper)
Mb2973c CONSERVED HYPOTHETICAL PROTEIN from Mycobacterium bovis AF2122/97
Rv2949c hypothetical protein from Mycobacterium tuberculosis H37Rv
Aligns to 22:179 / 199 (79.4%), covers 93.3% of PF01947, 47.0 bits
- function: Removes the pyruvyl group from chorismate to provide 4- hydroxybenzoate (4HB). Involved in the synthesis of glycosylated p- hydroxybenzoic acid methyl esters (p-HBADs) and phenolic glycolipids (PGL) that play important roles in the pathogenesis of mycobacterial infections.
catalytic activity: chorismate = 4-hydroxybenzoate + pyruvate (RHEA:16505) - Revisiting the expression signature of pks15/1 unveils regulatory patterns controlling phenolphtiocerol and phenolglycolipid production in pathogenic mycobacteria
Ramos, PloS one 2020 - “...85% similarity as a cut-off. Amongst these, it was possible to identify a cluster comprising Mb2973c , pks13 , fadD22 , pks15/1 , pks12 , rpmG and sigC ( Fig 5 ). In M . bovis BCG, as verified for M . tuberculosis , pks15/1 and...”
- “...a correlation value of 0.913, with correlation values between pks15/1 and fadD22 and lppX and Mb2973c all above 0.9. In addition, lppX , pks15/1 , fadD22 and Mb2973c were also shown to be correlated with sigC (above 0.79). 10.1371/journal.pone.0229700.g005 Fig 5 Expression profiling of selected genes...”
- The unfoldase ClpC1 of Mycobacterium tuberculosis regulates the expression of a distinct subset of proteins having intrinsically disordered termini
Lunge, The Journal of biological chemistry 2020 (secret) - Contraction and expansion dynamics: deciphering genomic underpinnings of growth rate and pathogenicity in Mycobacterium
Zhu, Frontiers in microbiology 2023 - “...dimycocerosate, a compound produced through the collaboration of ddrB, drrC, fadD22, lppx, mmpL7, ppsA, ppsE, Rv2949c, Rv2951c, Rv2954c, Rv2958c, Rv2959c and tesA , serves as a vital constituent of the mycobacterial cell wall, aiding in the evasion of host immune detection and counterattack ( Rens et...”
- Antimycobacterial Activities of Hydroxamic Acids and Their Iron(II/III), Nickel(II), Copper(II) and Zinc(II) Complexes
Yang, Microorganisms 2023 - “...expression of pks1 also correlates with other gene expressions, like the expression of fadD22 , Rv2949c , lppX , fadD29 , pks6 and pks12 [ 41 ]. The largest open-reading frame ( pks12 ) in the genome of M. tuberculosis H37Rv encodes probable polyketide synthase needed...”
- Revisiting the expression signature of pks15/1 unveils regulatory patterns controlling phenolphtiocerol and phenolglycolipid production in pathogenic mycobacteria
Ramos, PloS one 2020 - “...these and related genes. We show that pks1 expression is highly correlated with fadD22 , Rv2949c , lppX , fadD29 and, also, pks6 and pks12 , with the first three putatively integrating into a polycistronic structure. We evidence dynamic transcriptional heterogeneity within the genes involved in...”
- “...as H37Rv or Erdman. Production of PGLs phenolphthiocerol moiety starts with the enzyme encoded by Rv2949c that catalyses the formation of p-hydroxybenzoic acid (p-HBA) that will later be activated by the fadD22 product, with p-hydroxybenzoyl-AMP ligase activity [ 4 ], and finally elongated with malonyl-CoA as...”
- Revisiting the expression signature of pks15/1 unveils regulatory patterns controlling phenolphtiocerol and phenolglycolipid production in pathogenic mycobacteria
Ramos, 2020 - A systematic review of East African-Indian family of Mycobacterium tuberculosis in Brazil
Duarte, The Brazilian journal of infectious diseases : an official publication of the Brazilian Society of Infectious Diseases 2017 - “...Rv2510c Rv2510c_1509a>C S 36 2880702 Rv2560 Rv2560_628g>C NS 34 2891267 Rv2567 Rv2567_1473c>T S 34 3300104 Rv2949c Rv2949c_467g>A NS 33 3300196 Rv2949c Rv2949c_375c>T S 33 3312632 Rv2959c Rv2959c_207g>A NS 33 3332254 Rv2976c Rv2976c_501g>A S 13 3335708 Rv2979c Rv2979c_41c>G NS 13 3426795 Rv3062 Rv3062_1212c>G S 13 3438386 Rv3075c...”
- Systematic, multiparametric analysis of Mycobacterium tuberculosis intracellular infection offers insight into coordinated virulence
Barczak, PLoS pathogens 2017 - “...0 . 05 , and for the comparison of Rv with lppX , pks15 , Rv2949c , and mutT4 were non-significant. (C) A drrC transposon mutant was complemented with tetracycline-inducible, chromosomally-integrated drrC ; drrC expression was induced with 50ng/ml or 100ng/ml aTc. While in the absence...”
- Transcriptional profiling of Mycobacterium tuberculosis replicating ex vivo in blood from HIV- and HIV+ subjects
Ryndak, PloS one 2014 - “...universal stress protein, and Rv1735c, of unknown function. Randomly selected genes included Rv0692, Rv1703c and Rv2949c. In M. tb replicating in HIV+ patient blood, the four genes that were upregulated in the microarrays ( esat-6 , cfp-10 , Rv1703c and Rv2949c) were also upregulated in the...”
- “...form HIV- donors in the microarray study. Of these, four genes ( cfp-10 , Rv1703c, Rv2949c, and Rv1735c) were also not differentially expressed by qRT-PCR analysis. In blood from the HIV- donors, esat-6 was upregulated on the microarrays; but was not statistically significantly differentially expressed by...”
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bmp6 / V4HSG8 chorismate lyase (EC 4.1.3.40) from Pseudoalteromonas luteoviolacea 2ta16 (see paper)
Aligns to 34:182 / 202 (73.8%), covers 96.0% of PF01947, 41.2 bits
PP5317 chorismate-pyruvate lyase, putative from Pseudomonas putida KT2440
PP_RS27695 chorismate lyase from Pseudomonas putida KT2440
Aligns to 31:180 / 185 (81.1%), covers 96.6% of PF01947, 26.0 bits
JNO42_21190 chorismate lyase from Pseudomonas putida
Aligns to 31:180 / 185 (81.1%), covers 96.6% of PF01947, 26.0 bits
PFL_RS30945 chorismate lyase from Pseudomonas protegens Pf-5
Aligns to 31:180 / 187 (80.2%), covers 96.0% of PF01947, 22.5 bits
Or search for genetic data about PF01947 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory