Family Search for PF12158 (DUF3592)
April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.
PF12158 hits 13 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
bll1416 bll1416 from Bradyrhizobium japonicum USDA 110
2 alignments in 7:335 / 335 (98.2%), covering up to 94.2% of PF12158, 138.5 bits
ABO_0637 hypothetical protein from Alcanivorax borkumensis SK2
Aligns to 13:165 / 573 (26.7%), covers 95.7% of PF12158, 85.6 bits
- Genome sequence of the ubiquitous hydrocarbon-degrading marine bacterium Alcanivorax borkumensis
Schneiker, Nature biotechnology 2006 - “...the uptake systems for glutamate ( glt P, ABO_1478, glt S, ABO_1616) and choline/betaine (ABO_0232, ABO_0637 and ABO_0808), the A. borkumensis SK2 genome contains the genetic determinants for the biosynthesis of glutamate ( glt A, ABO_1501, glt B, ABO_2229, glt D, ABO_2228 and glt X, ABO_1509),...”
Q4A237 Putative membrane protein from Emiliania huxleyi virus 86 (isolate United Kingdom/English Channel/1999)
Aligns to 24:150 / 180 (70.6%), covers 98.6% of PF12158, 83.5 bits
- Proteomic analysis of the EhV-86 virion
Allen, Proteome science 2008 - “...Q4A2C3 ehv356 Unknown 2 81.0 39 Q4A2C1 ehv358 > 4 h p.i. 1 17.2 45 Q4A237 ehv442 > 4 h p.i. 1 19.4 58 Q4A225 ehv454 24 h p.i. 3 74.4 119 Q4A218 ehv461 12 h p.i. 4 32.9 36 a Data from Allen et al...”
TSI4_PSEAE / Q9I068 Immune protein Tsi4 from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
PA2775 hypothetical protein from Pseudomonas aeruginosa PAO1
Aligns to 8:134 / 145 (87.6%), covers 98.6% of PF12158, 78.1 bits
- function: Immunity protein that plays a role in preventing early activation of toxin Tse4.
disruption phenotype: Deletion mutant together with deletion of toxin Tse4 leads to a significant loss of fitness advantage when placed in competition with parental strains. - Effectiveness of Pseudomonas aeruginosa type VI secretion system relies on toxin potency and type IV pili-dependent interaction
Rudzite, PLoS pathogens 2023 - “...hydrolyses peptidoglycan backbone causing target cell lysis [ 55 , 56 ] Tse4 (PA2774) Tsi4 (PA2775) Forms ion selective membrane pores that disrupt proton motive force [ 38 , 59 ] Tse5 /RhsP1 (PA2684) Tsi5 /RhsP1i (PA2683.1) Forms ion selective membrane pores resulting in loss of...”
- Pseudomonas aeruginosa modulates alginate biosynthesis and type VI secretion system in two critically ill COVID-19 patients
Qu, Cell & bioscience 2022 - “...in LYSZa6, including clpV1 , PA3904 (PAAR4), PA2702 ( tse2 ), PA2774 ( tse4 ), PA2775 ( tsi4 ), vgrG1 , PA0093 ( tse6 ), PA3905 ( tecT ), PA0082 ( tssA1 ), PA2703 ( tsi2 ), PA0094 ( eagT6 ), PA3484 ( tse3 ), PA5266...”
- “...631.67 PA2702 Tse2 280.90 4.35 2.50E29 419.33 117.33 PA2774 Tse4 296.61 4.37 4.85E26 461.67 122.33 PA2775 Tsi4 133.81 4.71 7.24E19 212.67 52.33 vgrG1 VgrG1 2637.35 4.74 1.56E50 3969.33 1016.67 PA0093 Tse6 947.79 4.91 3.88E-46 1469.00 360.00 PA3905 Type VI effector chaperone for Tox-Rease, TecT 1073.56 4.95...”
- Pf4 Phage Variant Infection Reduces Virulence-Associated Traits in Pseudomonas aeruginosa
Tortuel, Microbiology spectrum 2022 - “...tse1 Tse1 2.06 PA2685 vgrG4 VgrG4 2.63 PA2703 tsi2 Tsi2 2.79 PA2774 tse4 Tse4 2.76 PA2775 tsi4 Tsi4 3.38 PA3291 tli1 Tli1 2.64 PA3294 vgrG4a VgrG4a 2.34 PA3485 tsi3 Tsi3 3.24 PA3486 vgrG4b VgrG4b 2.28 PA3487 tle5 Tle5 3.09 PA3488 tli5 Tli5 2.40 PA5086 tli5b1 Type...”
- NosocomialPseudomonas aeruginosaregulates alginate biosynthesis and Type VI secretion system during adaptive and convergent evolution for coinfection in critically ill COVID-19 patients
Qu, 2021 - Bacterial fitness in chronic wounds appears to be mediated by the capacity for high-density growth, not virulence or biofilm functions
Morgan, PLoS pathogens 2019 - “...3.4 0.007 178 PA1544 anr 736 5.3 0.007 0.050.03 PA2239 pslI 1256 9.0 0.007 nt PA2775 - 2407 17.4 0.007 nt PA5041 pilP 1730 12.6 0.007 nt PA5490 cc4 1842 13.7 0.007 nt PA3763 purL 1200 9.1 0.008 nt PA2645 nuoJ 1579 12.3 0.008 nt PA4223...”
- The Small RNA ErsA of Pseudomonas aeruginosa Contributes to Biofilm Development and Motility through Post-transcriptional Modulation of AmrZ
Falcone, Frontiers in microbiology 2018 - “...TssA1 1,424308 2,6838574 PA0093 tse6 , Tse6 1,500855 2,8301039 PA0509 nirN , NirN 2,22837 4,6860424 PA2775 tsi4 , Tsi4 1,314079 2,4864355 PA3872 narI , respiratory nitrate reductase gamma chain 3,080462 8,4588527 PA3873 narJ , respiratory nitrate reductase delta chain 2,190598 4,5649467 PA3874 narH , respiratory nitrate...”
- The T6SSs of Pseudomonas aeruginosa Strain PAO1 and Their Effectors: Beyond Bacterial-Cell Targeting
Sana, Frontiers in cellular and infection microbiology 2016 - “...al., 2011 ; Lu et al., 2013 ; Silverman et al., 2013 Tse4 PA2774 Tsi4 (PA2775) Bacteria Periplasm ? 4 transmembrane segments Hcp1 (PA0085)- dependent Whitney et al., 2015 Tse5 (RhsP1) PA2684 Tsi5 (PA2684.1) Bacteria Periplasm/ membrane RetS repression ? RHS/YD repeat, toxicity VgrG1c (PA2685)- dependent...”
- Genetically distinct pathways guide effector export through the type VI secretion system
Whitney, Molecular microbiology 2014 - “...Fig. 1B ). Based on these observations, we hypothesized that the open reading frame (ORF), PA2775, encodes a PA2774-specific immunity determinant. To test whether PA2774PA2775 constitute an effectorimmunity (EI) pair, we generated an in-frame deletion of the PA2774PA2775 bicistron and assessed the ability of this strain...”
- “...strains possessing PA2774 and a functional T6SS display a significant fitness advantage against the PA2774 PA2775 recipient ( Fig. 2A ). In agreement with the hypothesis that PA2774 functions as an antibacterial effector delivered by the H1-T6SS, deletion of PA2774 or inactivation of the T6SS in...”
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YmfA / b1122 putative inner membrane protein YmfA from Escherichia coli K-12 substr. MG1655 (see 2 papers)
ymfA / ECOCYC|G6579-MONOMER inner membrane protein ymfA from Escherichia coli K12 (see paper)
Aligns to 4:140 / 153 (89.5%), covers 94.9% of PF12158, 68.5 bits
c1397 Hypothetical protein ymfA from Escherichia coli CFT073
Aligns to 18:154 / 167 (82.0%), covers 94.9% of PF12158, 62.0 bits
QU43_RS42950 DUF3592 domain-containing protein from Burkholderia cenocepacia J2315
BCAL1291 hypothetical protein from Burkholderia cenocepacia J2315
Aligns to 2:121 / 125 (96.0%), covers 92.0% of PF12158, 60.7 bits
BCAL2505 hypothetical protein from Burkholderia cenocepacia J2315
QU43_RS49180 DUF3592 domain-containing protein from Burkholderia cenocepacia J2315
Aligns to 1:122 / 126 (96.8%), covers 90.6% of PF12158, 59.9 bits
- Burkholderia cenocepacia utilizes a type VI secretion system for bacterial competition
Spiewak, MicrobiologyOpen 2019 - “...& Brodersen, 2018 ), and two homologues of the antibacterial poreforming toxin Tse4 (BCAL1292 and BCAL2505; Whitney et al., 2014 ; LaCourse et al., 2018 ) were also identified. An additional putative T6SS effector was identified by using homologues of the Tae peptidoglycan hydrolase T6SS effector...”
- “...(PF11678) BCAL2276 (QU43_RS48010), BCAL2274 (QU43_RS48000), BCAL2272 (QU43_RS47990) BCAL2504 (QU43_RS49175) 1 BCAL2503 c (QU43_RS49165) Poreforming Tse4 BCAL2505 (QU43_RS49180) BCAM1464 (QU43_RS74705) 2 N/A d Peptidoglycan hydrolase Tae4 BCAM1465 (QU43_RS61680) BCAM0046 (QU43_RS54630) 2 BCAM0043 (QU43_RS54615) Phospholipase Tle1/DUF2235 (PF09994) BCAM0045 (QU43_RS54625) BCAM0149 (QU43_RS55145) 2 BCAM0148 (QU43_RS55140) Phospholipase Tle5/PLDc_SF (cl15239) BCAM0150...”
- Burkholderia cenocepacia differential gene expression during host-pathogen interactions and adaptation to the host environment
O'Grady, Frontiers in cellular and infection microbiology 2011 - “...surface antigen 3.1 BCAL2468 Putative membrane protein 1.9 BCAL2482 Putative OmpC outer membrane protein 3.1 BCAL2505 Putative membrane protein 1.5 BCAL2552 Putative membrane protein 1.5 BCAL2553 Putative membrane protein 1.8 BCAL3033 Probable outer membrane lipoprotein carrier 1.5 BCAL3203 Putative periplasmic TolB protein 1.6 BCAL3204 Putative OmpA...”
- “...BCAL2486 Putative ironsulfur oxidoreductase 2.11 BCAL2488 Lysr family regulatory protein 2.07 BCAL2500 Hypothetical protein 1.67 BCAL2505 Putative membrane protein 1.55 BCAL2507 Conserved hypothetical protein 1.93 c BCAL2516 Hypothetical protein 1.70 BCAL2529 Putative transcriptional regulator 1.53 BCAL2541 Putative hydrolase 1.53 BCAL2552 Putative membrane protein 1.53 BCAL2553 Putative...”
- Burkholderia cenocepacia utilizes a type VI secretion system for bacterial competition
Spiewak, MicrobiologyOpen 2019 - “...BCAL2276 (QU43_RS48010), BCAL2274 (QU43_RS48000), BCAL2272 (QU43_RS47990) BCAL2504 (QU43_RS49175) 1 BCAL2503 c (QU43_RS49165) Poreforming Tse4 BCAL2505 (QU43_RS49180) BCAM1464 (QU43_RS74705) 2 N/A d Peptidoglycan hydrolase Tae4 BCAM1465 (QU43_RS61680) BCAM0046 (QU43_RS54630) 2 BCAM0043 (QU43_RS54615) Phospholipase Tle1/DUF2235 (PF09994) BCAM0045 (QU43_RS54625) BCAM0149 (QU43_RS55145) 2 BCAM0148 (QU43_RS55140) Phospholipase Tle5/PLDc_SF (cl15239) BCAM0150 (QU43_RS55150),...”
BCAM1200 hypothetical protein from Burkholderia cenocepacia J2315
Aligns to 15:138 / 152 (81.6%), covers 92.0% of PF12158, 55.1 bits
lpl0118 hypothetical protein from Legionella pneumophila str. Lens
Aligns to 12:157 / 159 (91.8%), covers 98.6% of PF12158, 50.8 bits
Rv0556 PROBABLE CONSERVED TRANSMEMBRANE PROTEIN from Mycobacterium tuberculosis H37Rv
Aligns to 24:157 / 171 (78.4%), covers 94.2% of PF12158, 45.5 bits
- Genome-wide association studies of global Mycobacterium tuberculosis resistance to 13 antimicrobials in 10,228 genomes identify new resistance mechanisms
The, PLoS biology 2022 - “...lprF : Rv1371 R (O), Rv3183 : Rv3188 R (P), dxs2 : Rv3382c R (Q), Rv0556 (R), Rv0514 (S) We assessed whether the top genes for each drug were in either of 2 previously described resistance catalogues [ 11 , 17 ]; we describe variants in...”
- Discovering mycobacterial lectins as potential drug targets and vaccine candidates for tuberculosis treatment: a theoretical approach
Sundar, Journal of proteins and proteomics 2021 - “...network Cluster Score (density) Nodes Edges Node ids 1 28.933 31 434 Rv3256c, Rv3604c, Rv0475, Rv0556, Rv1275, Rv1476, Rv3212, Rv2186c, Rv2732c, Rv3909, Rv3850, Rv1111c, Rv2164c, Rv0383c, Rv1274, Rv0431, Rv3205c, Rv2695, Rv2536, Rv3355c, Rv0996, Rv3035, Rv0817c, Rv2700, Rv2091c, Rv1109c, Rv3835, Rv0466, Rv0955, Rv1166, Rv0497 2 5.6 6...”
- ORBIT: a New Paradigm for Genetic Engineering of Mycobacterial Chromosomes
Murphy, mBio 2018 - “...ssb Single-strand-binding protein Rv0218 Rv0218 Probable conserved transmembrane protein Rv0228 Rv0228 Probable integral membrane acyltransferase Rv0556 Rv0556 Probable conserved transmembrane protein Rv0896 gltA2 Probable citrate synthase Rv0993 galU UTPglucose-1-phosphate uridylyltransferase GalU Rv1005c pabB Probable para-aminobenzoate synthase component Rv1093 glyA1 Serine hydroxymethyltransferase Rv1392 metK Probable S-adenosylmethionine synthetase...”
- Mycobacterium tuberculosis Phosphate Uptake System Component PstA2 Is Not Required for Gene Regulation or Virulence
Tischler, PloS one 2016 - “...in the pstA1 pstA2 double mutant but not the pstA1 single mutant ( rv3371 and rv0556 , S3 Table ). We also analyzed expression of two genes that were differentially expressed above the arbitrary 2-fold cut-off in the pstA1 pstA2 mutant, but that did not achieve...”
- Comparative Genome and Network Centrality Analysis to Identify Drug Targets of Mycobacterium tuberculosis H37Rv
Melak, BioMed research international 2015 - “...and cell processes 71224.33 0.08889492 167 0.0488181 3H6P Rv0311 Conserved hypotheticals 67942.516 0.07391167 156 0.048861504 Rv0556 Cell wall and cell processes 66400.05 0.103606604 193 0.049006738 Rv0451c Cell wall and cell processes 66230.336 0.09615834 171 0.04883437 2LW3 Rv0288 Cell wall and cell processes 63475.453 0.09102694 170 0.048855472...”
- Computational prediction and experimental assessment of secreted/surface proteins from Mycobacterium tuberculosis H37Rv
Vizcaíno, PLoS computational biology 2010 - “...positions 2223: IATTA-CSFQA Pos+2=S + cytoplasm cytoplasmic 0 0 + + + + SecretomeP 2.0 Rv0556 (+) 0.829 NA + plasma membrane cytoplasmic membrane 2 2 + + Rv0361 0.924 NA + cytoplasm unknown 1 1 + + + Rv0178 0.790 NA + extracellular unknown 1...”
- “...of the screening done with the general localizers and the topology predictors, Rv0200, Rv1280c and Rv0556 were chosen to be assessed in the experimental phase as positive controls of SignalP 3.0, TatP 1.0 and SecretomeP 2.0 predictions, respectively ( Table 2 ). Since no proteins were...”
BB0794 putative exported protein from Bordetella bronchiseptica RB50
Aligns to 6:135 / 137 (94.9%), covers 81.2% of PF12158, 33.2 bits
- Diversity of secretion systems associated with virulence characteristics of the classical bordetellae
Park, Microbiology (Reading, England) 2015 - “...are five proteins encoded within the locus [TssA (BB0794), TssN (BB0808), TssP (BB0811), TssQ (BB0812) and TssV (BB0818)] that have neither known T6SS...”
- Characterization of a highly conserved island in the otherwise divergent Bordetella holmesii and Bordetella pertussis genomes
Diavatopoulos, Journal of bacteriology 2006 - “...was obtained by PCR, using one primer inside the IUI, in BB0794, and one primer outside the IUI, in BB0795, which was not detected in B. holmesii by CGH. The...”
Bint_0120 DUF3592 domain-containing protein from Brachyspira intermedia PWS/A
Aligns to 5:137 / 140 (95.0%), covers 92.0% of PF12158, 27.7 bits
Or search for genetic data about PF12158 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory