Family Search for PF07411 (DUF1508)

April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.

PF07411 hits 12 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

Q8X7I0 UPF0339 protein YegP from Escherichia coli O157:H7
ECs2888 hypothetical protein from Escherichia coli O157:H7 str. Sakai
2 alignments in 10:108 / 110 (87.3%), covering up to 100.0% of PF07411, 150.2 bits

• Peptidylarginine Deiminase Inhibitors Reduce Bacterial Membrane Vesicle Release and Sensitize Bacteria to Antibiotic Treatment
  Kosgodage, Frontiers in cellular and infection microbiology 2019
  • “...PFL-like enzyme TdcE tdcE 29499 66.01 P0AGL3 Putative reactive intermediate deaminase TdcF tdcF 161746 80.57 Q8X7I0 UPF0339 protein YegP yegP 6121.7 87.63 Q0TFD0 Acetyl-coenzyme A carboxylase carboxyl transferase subunit- accD 156916 99.12 P0A6A5 Acetate kinase ackA 79146 70.42 P0A9Q3 Aerobic respiration control protein ArcA arcA 19035...”
• Physiological Response of Escherichia coli O157:H7 Sakai to Dynamic Changes in Temperature and Water Activity as Experienced during Carcass Chilling
  King, Molecular & cellular proteomics : MCP 2016
  • “...( ECs0383 , ECs0886 , ycaC / ECs0982 , ECs1692 , ECs2695 , ECs2785 , ECs2888 , ECs3588 , ECs4112 , yhfG / ECs4213 , ECs4323 , ysgA / ECs4760 , ECs5089 ). Cluster II contains genes involved in fatty acid and phospholipid metabolism ( fadA...”
• Global transcriptional response of Escherichia coli O157:H7 to growth transitions in glucose minimal medium
  Bergholz, BMC microbiology 2007
  • “...hisH -2.22 1 ECs3470 trmD -5.46 1 ECs2837 wbdQ -2.35 1 ECs3472 rpsP -5.57 1 ECs2888 yegP 4.47 2 ECs3520 ygaT 4.88 2 ECs2892 yegS 3.38 2 ECs3522 gabD 2.53 2 ECs2900 fbaB 2.45 2 ECs3523 gabT 3.14 2 ECs2920 metG -2.59 1 ECs3533 ygaM 3.32...”

YegP / b2080 DUF1508 domain-containing protein YegP from Escherichia coli K-12 substr. MG1655 (see paper)
b2080 orf, hypothetical protein from Escherichia coli str. K-12 substr. MG1655
2 alignments in 10:108 / 110 (87.3%), covering up to 100.0% of PF07411, 149.4 bits

• Reconfiguring the quorum-sensing regulator SdiA of Escherichia coli to control biofilm formation via indole and N-acylhomoserine lactones
  Lee, Applied and environmental microbiology 2009
  • “...b1487 b1536 b1629 b1690 b1729 b1784 b1955 b1967 b2014 b2080 b2112 b2135 b2165 b2660 b2654 b2655 b2658 b2672 b2809 b2856 b2857 b3099 b3170 b3184 b3260 b3512...”
• Genome-wide analysis of the general stress response network in Escherichia coli: sigmaS-dependent genes, promoters, and sigma factor selectivity
  Weber, Journal of bacteriology 2005
  • “...b1341 b1547 b1614 b1783 b1784 b1847 b1999 b2080 b2086 b2602 b2660 b2672 b2665 Putative acyl-CoA dehydrogenase (flavoprotein), adaptive response (transcription...”
• Global RNA half-life analysis in Escherichia coli reveals positional patterns of transcript degradation
  Selinger, Genome research 2003
  • “...b0553 b2398 b3494 b3556 b3685 b0726 b1205 b3362 b0162 b1060 b2080 b2377 b3361 b4132 b4396 yjfN IldD cpxP(2) cspG cpxP(1) nmpC yfeC uspB cspA yidE sucA ychH yhfG...”
• Combined, functional genomic-biochemical approach to intermediary metabolism: interaction of acivicin, a glutamine amidotransferase inhibitor, with Escherichia coli K-12
  Smulski, Journal of bacteriology 2001
  • “...b1778 b1783 b1816 b1869 b1870 b1871 b1953 b1955 b2007 b2080 b2098 b2112 b2122 b2127 b2135 b2299 b0305 b0358 b0458 b0485 b0572 b0573 b0581 b0600 b0607 b0643...”
  • “...b1678 b1725 b1778 b1783 b1816 b1869 b1870 b1871 b1953 b1955 b2007 b2080 b2098 b2112 b2122 b2127 b2135 b2299 2.2 2.2 3.5 2.6 3.5 2.6 2.7 2.1 6.8 5.3 2.2 3.7 2.5...”

KZA74_03405 YegP family protein from Acinetobacter baumannii
A1S_2820 hypothetical protein from Acinetobacter baumannii ATCC 17978
2 alignments in 10:108 / 113 (85.0%), covering up to 100.0% of PF07411, 146.3 bits

• DNA damage response coregulator ddrR affects many cellular pathways and processes in Acinetobacter baumannii 17978
  Cook, Frontiers in cellular and infection microbiology 2023
  • “...NSC KZA74_03335 NSC NSC 5 A1S_2823/KZA74_03390 NSC NSC KZA74_03390 NSC NSC 6 A1S_2820/KZA74_03405 NSC NSC KZA74_03405 NSC NSC 7 A1S_2667/KZA74_04205 NSC NSC KZA74_04205 NSC NSC 8 A1S_2629/KZA74_04435 NSC NSC KZA74_04435 NSC NSC 9 A1S_2514/KZA74_05010 NSC NSC KZA74_05010 NSC NSC 10 A1S_2510/KZA74_05040 NSC R KZA74_05040 NSC R...”
• MacAB-TolC Contributes to the Development of Acinetobacter baumannii Biofilm at the Solid-Liquid Interface
  Robin, Frontiers in microbiology 2021
  • “...M 3 180.53 1.8E-05 ABYAL2931 A1S_2452 3.6 styD Phenylacetaldehyde dehydrogenase I+M 8 448.54 1.3E-04 ABYAL3342 A1S_2820 2.8 Conserved hypothetical protein I 2 122.24 1.7E-03 ABYAL3515 A1S_2957 2.2 Zn-dependent hydrolase M 2 101.57 2.3E-05 ABYAL4020 A1S_3418 2.7 hpd 4-hydroxyphenylpyruvate dioxygenase I 4 210.88 6.0E-03 M for membrane...”

PA0329 hypothetical protein from Pseudomonas aeruginosa PAO1
Q9I6G2 UPF0339 protein PA0329 from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
2 alignments in 10:108 / 110 (87.3%), covering up to 97.9% of PF07411, 131.2 bits

• Modified N-acyl-L-homoserine lactone compounds abrogate Las-dependent quorum-sensing response in human pathogen Pseudomonas aeruginosa
  Ballante, Frontiers in molecular biosciences 2023
  • “...Cytoplasm Yes 30S ribosomal protein S1 rpsA Q9HZ71 62 2 0.011 X Cytosol UPF0339 protein PA0329 PA0329 Q9I6G2 12 1.7 0.015 X 50S ribosomal protein L11 rplK Q9HWC5 15 1.6 0.021 X Cytosol Phosphoethanolamine lipid A transferase PA1972 Q9I2D3 WP003113468.1 62 2.6 0.025 X Membrane Lysyl...”
  • “...0.2 0.034 0 0.088 30S ribosomal protein S1 rpsA 0.3 0.0074 0.5 0.18 UPF0339 protein PA0329 PA0329 0.4 0.01 0.7 0.31 50S ribosomal protein L11 rplK 0.6 0.054 1 0.52 Phosphoethanolamine lipid A transferase PA1972 0 0.0018 0 0.088 Proteins displayed the same quantitative profile in...”
• Cysteamine Inhibits Glycine Utilisation and Disrupts Virulence in Pseudomonas aeruginosa
  Fraser-Pitt, Frontiers in cellular and infection microbiology 2021
  • “...Cysteine biosynthetic process from serine NP_248924.1 transcriptional regulator PA0233 Regulation of transcription NP_249020.1 hypothetical protein PA0329 Uncharacterised NP_253705.1 peptide methionine sulfoxide reductase PA5018 msrA/pmsR Cellular response to oxidative stress NP_253559.1 hypothetical protein PA4872 Uncharacterised NP_250270.1 hypothetical protein PA1579 Uncharacterised NP_251947.1 periplasmic tail-specific protease PA3257 algO/prc Signal...”
• Lipotoxin F of Pseudomonas aeruginosa is an AlgU-dependent and alginate-independent outer membrane protein involved in resistance to oxidative stress and adhesion to A549 human lung epithelia
  Damron, Microbiology (Reading, England) 2009
  • “...PA4244 (RplO) PA3686 (Adk) PA0962 PA3611 PA0888 (AotJ) PA3021 PA0329 PA2743 (InfC) PA0456 PA0981 PA1804 (HupB) 10.7 8.8 8.6 8.3 7.8 7.2 5.5 5.5 5.5 1.5 15.4...”
• Modified N-acyl-L-homoserine lactone compounds abrogate Las-dependent quorum-sensing response in human pathogen Pseudomonas aeruginosa
  Ballante, Frontiers in molecular biosciences 2023
  • “...30S ribosomal protein S1 rpsA Q9HZ71 62 2 0.011 X Cytosol UPF0339 protein PA0329 PA0329 Q9I6G2 12 1.7 0.015 X 50S ribosomal protein L11 rplK Q9HWC5 15 1.6 0.021 X Cytosol Phosphoethanolamine lipid A transferase PA1972 Q9I2D3 WP003113468.1 62 2.6 0.025 X Membrane Lysyl endopeptidase prpL...”

PM0519 unknown from Pasteurella multocida subsp. multocida str. Pm70
2 alignments in 11:109 / 114 (84.2%), covering up to 100.0% of PF07411, 129.1 bits

• The RNA-Binding Chaperone Hfq Is an Important Global Regulator of Gene Expression in Pasteurella multocida and Plays a Crucial Role in Production of a Number of Virulence Factors, Including Hyaluronic Acid Capsule
  Mégroz, Infection and immunity 2016
  • “...PM0300 Mrp PM0326 PM0337 PM0337 PM0358 FdhE PM0473 PM0474 PM0519 GlgC IlvE Plp4 TehB None HisH1 PM0853 PM0928 PM0937 PM0979 DapA PM1190 PM1211 PM1562 MscL NapA...”
• Predicting the outer membrane proteome of Pasteurella multocida based on consensus prediction enhanced by results integration and manual confirmation
  E-komon, BMC bioinformatics 2012
  • “...transmembrane -barrel proteins by the -barrel predictors alone; two of these were hypothetical -barrel proteins (PM0519 and PM1772) which might have novel functions. Thirty-two proteins were uniquely predicted to be outer membrane lipoproteins which were consistent with the agreement analysis. However, almost half of these were...”
  • “...by transmembrane -barrel protein predictors (a pilus assembly protein RcpC, a sialidase NanB, Mce/PqiB, YccT, PM0519, PM1515, PM1772), three proteins predicted by lipoprotein predictors (PM1002, PM1798, PM1939), three proteins predicted by subcellular localization predictors (PM0015, PM0234, a RlpA-like protein PM1926), and one protein (PM1323) predicted by...”
• Screening of 71 P. multocida proteins for protective efficacy in a fowl cholera infection model and characterization of the protective antigen PlpE
  Hatfaludi, PloS one 2012
  • “...I + + PM0442 23.7 Pm0442 - immunogenic membrane protein pDEST-41BA S + + + PM0519 12.5 Pm0519 - hypothetical protein pDEST-17 I + PM0527 50.6 TolC1 - outer membrane efflux channel pDEST-17 I + + + PM0542 75.1 Glgx - glycogen operon protein pDEST-41BA I...”
• Fis is essential for capsule production in Pasteurella multocida and regulates expression of other important virulence factors
  Steen, PLoS pathogens 2010
  • “...Unknown - 1.85 c 0.008 1244889 pckA Predicted phosphoenolpyruvate carboxykinase C 2.13 c 0.044 1243866 PM0519 Unknown S 2.18 0.044 1245193 ptsB Sucrose-specific PTSII G 2.19 0.047 1244890 PM1543 Unknown - 2.39 c 0.007 1244799 PM1452 Unknown S 2.70 c 0.024 a NCBI accession number of...”

HVO_2922 hypothetical protein from Haloferax volcanii DS2
Aligns to 11:59 / 60 (81.7%), covers 100.0% of PF07411, 83.2 bits

• Small Proteins in Archaea, a Mainly Unexplored World
  Weidenbach, Journal of bacteriology 2022 (secret)
• Solution Structure and Dynamics of the Small Protein HVO_2922 from Haloferax volcanii
  Kubatova, Chembiochem : a European journal of chemical biology 2020 (PubMed)
  • “...a global proteome analysis for small proteins of the archaeal model organism Haloferax volcanii, the HVO_2922 protein has been identified. It is differentially expressed in response to changes in iron and salt concentrations, thus suggesting that its expression is stress-regulated. The protein is conserved among Haloarchaea...”

RLV_6223 YegP family protein from Rhizobium leguminosarum bv. viciae
Aligns to 9:56 / 62 (77.4%), covers 100.0% of PF07411, 77.4 bits

• Proteome Analysis Reveals a Significant Host-Specific Response in Rhizobium leguminosarum bv. viciae Endosymbiotic Cells
  Durán, Molecular & cellular proteomics : MCP 2021
  • “...RLV_3266 molecular_chaperone_GroES 99 120.5 207.7 RLV_6777 aconitate_hydratase 897 120.4 43.3 RLV_4395 peroxidase 220 117.8 53.3 RLV_6223 hypothetical_protein 63 116.7 141.7 RLV_6211 glyceraldehyde-3-phosphate_dehydrogenase 337 116.0 100.0 RLV_1884 lysine_2,3-aminomutase 375 113.2 n.d. RLV_1821 OsmC-like_protein 184 111.1 n.d. RLV_1846 D-alanine--D-alanine_ligase 359 110.7 n.d. RLV_6655 ATP_synthase_subunit_alpha 510 110.6 103.4 RLV_1394...”

APL_0643 hypothetical protein from Actinobacillus pleuropneumoniae L20
Aligns to 8:56 / 61 (80.3%), covers 100.0% of PF07411, 74.6 bits

• Effects of growth conditions on biofilm formation by Actinobacillus pleuropneumoniae
  Labrie, Veterinary research 2010
  • “...namA NADPH dehydrogenase 2.078 APL_1948 APL_1948 Hypothetical protein 2.061 APL_0870 APL_0870 Putative C4-dicarboxylate transporter 2.034 APL_0643 APL_0643 Hypothetical protein 2.029 APL_1743 APL_1743 Ser/Thr protein phosphatase family protein 1.999 APL_0426 APL_0426 Hypothetical protein 1.994 APL_1791 APL_1791 Putative periplasmic iron/siderophore binding protein 1.944 APL_0970 APL_0970 Hypothetical protein 1.908...”

Atu0232 hypothetical protein from Agrobacterium tumefaciens str. C58 (Cereon)
Aligns to 9:56 / 62 (77.4%), covers 100.0% of PF07411, 73.1 bits

• The near-symmetry of protein oligomers: NMR-derived structures
  Bonjack, Scientific reports 2020
  • “...brevity we shall briefly demonstrate it with one additional protein from the full list, namely ATU0232 from the Agrobacterium Tumefaciens (PDB 2K7I). We focus again on the three conformers - the minimal energy conformer, the least symmetry-distorted and the most distorted one for which we identified...”
  • “...Figure 5 ( a ) Symmetry map of the NMR-derived minimal energy conformer of the ATU0232 protein (PDB 2K7I), and ( b ) a closer look at the asymmetric hydrogen bonds between Arg15 from one subunit and Glu30 from other subunit. Also shown is the hydrogen...”
• Determination of the structures of symmetric protein oligomers from NMR chemical shifts and residual dipolar couplings
  Sgourakis, Journal of the American Chemical Society 2011
  • “...0.9/1.0/0.5 0.05 KR150 3OBH/X-ray e 74 2 / f CS, RDC(1,56), NOE (67) 1.4/2.8/2.7 0.32 ATU0232 2K7I/NMR 64 2 / f CS, RDC(1,46) 2.2/2.5/2.1 0.24 CA dimer 2KOD/NMR 77 2 / CS, RDC(1,100) 1.3/1.4/1.2 0.1 P53 1C26/X-ray 31 4 / f CS only 0.7/1.1/0.3 N/A a...”
  • “...supplemented with an RDC energy term. We have further tested this approach for the protein ATU0232 from Agrobacterium tumefaciens (PDB ID 2K7I ). The previously determined solution structure shows a complicated interleaved interface with an intermolecular 5-strand -sheet in which subunit forms strands 24, while subunit...”

NMB1088 hypothetical protein from Neisseria meningitidis MC58
Aligns to 8:55 / 56 (85.7%), covers 100.0% of PF07411, 67.5 bits

• Unheeded SARS-CoV-2 proteins? A deep look into negative-sense RNA
  Bartas, Briefings in bioinformatics 2022
  • “...XD domain RNA polymerase alpha from measles virus 2k9d(a) 0.42 nsORF5 11 25,38 0 YegP-like nmb1088 protein from Neisseria meningitidis 3bid(f2) 0.44 Complement control module/SCR domain Complement receptor type 1 2mcz(a2) 0.41 Signal recognition particle (SRP) complex Signal recognition particle 9kDa protein 1ry1(c) 0.4 Scorpion toxin-like...”
• Unheeded SARS-CoV-2 proteins? A deep look into negative-sense RNA
  Bartas, 2020

BAB1_0991 hypothetical protein from Brucella melitensis biovar Abortus 2308
Aligns to 8:55 / 56 (85.7%), covers 97.9% of PF07411, 61.3 bits

• Proteomics-based confirmation of protein expression and correction of annotation errors in the Brucella abortus genome
  Lamontagne, BMC genomics 2010
  • “...XylF BAB1_1117 PpiB-2 Outer membrane BAB1_0659 Omp2a BAB1_0707 OstA BAB1_0963 TolC Unknown localization BAB1_0030 Unknown BAB1_0991 Unknown BAB1_1543 DUF526 BAB1_2123 RpmI; L35 BAB1_0170 GrpE BAB1_1070 WrbA BAB1_1559 FbcF BAB1_2176 YaeC/NLPA lipoprotein BAB1_0389 CcoP BAB1_1113 Unknown; conserved BAB1_1641 Unknown BAB1_2186 RpsT; S20 BAB1_0413 AtpB BAB1_1152 PdhA BAB1_1647...”

lp_2443 prophage Lp2 protein 14 from Lactobacillus plantarum WCFS1
Aligns to 93:138 / 143 (32.2%), covers 81.2% of PF07411, 47.3 bits

• Identification of prebiotic fructooligosaccharide metabolism in Lactobacillus plantarum WCFS1 through microarrays
  Saulnier, Applied and environmental microbiology 2007
  • “...and prophage related functions lp_0660 lp_0860 lp_2441 lp_2443 lp_2445 lp_2446 lp_2447 lp_2457 lp_3383 Prophage P1 protein 37 Transposase, fragment Prophage P2a...”

Or search for genetic data about PF07411 in the Fitness Browser