Family Search for PF10928 (DUF2810)

Running HMMer for PF10928

PF10928 hits 5 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

SeKA_A3310 YibL family ribosome-associated protein from Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188
Aligns to 66:118 / 120 (44.2%), covers 96.2% of PF10928, 113.3 bits

• Genomic and Evolutionary Analysis of Two Salmonella enterica Serovar Kentucky Sequence Types Isolated from Bovine and Poultry Sources in North America
  Haley, PloS one 2016
  • “...13) D 4943 SeKA_A2676 (tRNA-Phe), SeKA_A2689 AEX15_04620 (tRNA-Phe), AEX15_04645 11 hypothetical proteins, putative autotransporter 5146 SeKA_A3310, SeKA_A3314 AEX15_02655, AEX15_02660 12 hypothetical proteins 5073 SeKA_A3672, SeKA_A3678 AEX15_19610, AEX15_19615 13 DNA phosphorothioation, hypothetical proteins, integrase D 17034 SeKA_A4142 (tRNA-Leu), SeKA_A4161 C SEEK9263_t17079 (tRNA-Leu), SEEK9263_16827 C 14 type I...”

SF3636 orf, conserved hypothetical protein from Shigella flexneri 2a str. 301
Aligns to 66:118 / 120 (44.2%), covers 96.2% of PF10928, 110.8 bits

• Structural characterization of a flexible two-domain protein in solution using small angle X-ray scattering and NMR data
  Lemak, Structure (London, England : 1993) 2014
  • “...is compared with different refinement strategies for the structural characterization of the flexible two-domain protein sf3636 from Shigella flexneri 2a. The results of our refinement suggest the existence of a dominant population of configurational states in solution possessing an overall elongated shape and restricted relative twisting...”
  • “...the optimal ensemble search. We have applied our protocol to characterize the solution structure of sf3636 from Shigella flexneri 2a, a two-domain protein with inter-domain flexibility. To our knowledge, this work is the first report of the joint ensemble refinement of a flexible multi-domain protein against...”

AEX15_02660 YibL family ribosome-associated protein from Salmonella enterica subsp. enterica serovar Kentucky
Aligns to 66:117 / 120 (43.3%), covers 94.3% of PF10928, 110.7 bits

• Genomic and Evolutionary Analysis of Two Salmonella enterica Serovar Kentucky Sequence Types Isolated from Bovine and Poultry Sources in North America
  Haley, PloS one 2016
  • “...SeKA_A2676 (tRNA-Phe), SeKA_A2689 AEX15_04620 (tRNA-Phe), AEX15_04645 11 hypothetical proteins, putative autotransporter 5146 SeKA_A3310, SeKA_A3314 AEX15_02655, AEX15_02660 12 hypothetical proteins 5073 SeKA_A3672, SeKA_A3678 AEX15_19610, AEX15_19615 13 DNA phosphorothioation, hypothetical proteins, integrase D 17034 SeKA_A4142 (tRNA-Leu), SeKA_A4161 C SEEK9263_t17079 (tRNA-Leu), SEEK9263_16827 C 14 type I restriction-modification system, putative...”

YibL / b3602 DUF2810 domain-containing protein YibL from Escherichia coli K-12 substr. MG1655 (see 2 papers)
YIBL_ECOLI / P0ADK8 Uncharacterized protein YibL from Escherichia coli (strain K12) (see paper)
yibL / RF|NP_418059 uncharacterized protein yibL from Escherichia coli K12 (see paper)
b3602 hypothetical protein from Escherichia coli str. K-12 substr. MG1655
Aligns to 66:118 / 120 (44.2%), covers 96.2% of PF10928, 110.0 bits

• Use of functional interactions with MarA to discover chromosomal genes affecting antibiotic susceptibility in Escherichia coli
  Ruiz, International journal of antimicrobial agents 2011
  • “...1.0 0.9 1.8 damX b3388 O Predicted membrane-anchored protein 1.0 1.0 1.0 1.0 yibLp d b3602 O Conserved protein 1.0 0.8 0.9 1.2 yniDp d b4535 O Predicted unconserved protein 1.0 0.9 0.9 1.2 Genes whose inactivation does not affect MarA-mediated antibiotic resistance cspGp d b0990...”
• Many chromosomal genes modulate MarA-mediated multidrug resistance in Escherichia coli
  Ruiz, Antimicrobial agents and chemotherapy 2010
  • “...50 75 93 65 30 65 65 yibLpc yniDpc b3602 b4535 68 94 68 77 50 125 100 50 Others Putative membrane protein Predicted membrane-anchored protein tRNA-methionine...”

Q9KNF4 YibL family ribosome-associated protein from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
VCA0010 conserved hypothetical protein from Vibrio cholerae O1 biovar eltor str. N16961
Aligns to 91:143 / 145 (36.6%), covers 98.1% of PF10928, 98.1 bits

• Comprehensive in silico analyses of fifty-one uncharacterized proteins from Vibrio cholerae
  Basu, PloS one 2024
  • “...from the genome of V . cholerae C. The mRNA abundance of VC_A0010 (UniProt ID- Q9KNF4) depicts significant downregulation in CgtA depleted condition in V . cholerae . D. Protein expression levels of Q9KNF4 were downregulated in cgtA knockdown strain of V . cholerae E. The...”
  • “...Table 1 shows the comparison of the proteomic and transcriptomic data for 9 proteins- Q9KND3, Q9KNF4, Q9KLQ3, Q9KPP0, Q9KRM9, Q9KKL8, Q9KND9, Q9KSV6, and Q9KNG0 whose expression was altered at mRNA and protein level, when cgtA was knocked down. Fig 2A2I show the genes and their products...”
• Fine-scale time-lapse analysis of the biphasic, dynamic behaviour of the two Vibrio cholerae chromosomes
  Fiebig, Molecular microbiology 2006
  • “...between VC2761 and VC2762 (13 kb from the oriC I ) in AVC89 and between VCA0010 and VCA0011 (9 kb from the oriC II ) in AVC93. pLAU53 ( Lau et al ., 2003 ), which carries TetR-YFP and LacI-CFP under the control of the pBAD...”
• SIGI: score-based identification of genomic islands
  Merkl, BMC bioinformatics 2004
  • “...to VCA0491 [ 19 ]. For the analysis, two groups were formed consisting of genes VCA0010 to VCA0230 (group cl ) and genes VCA0271 to VCA0491 (group gi ). For each gene, codon usage contrast, * difference, dicodon difference as defined in [ 18 ] and...”
  • “...methods for the identification of compositional atypical genes. Two sets were analysed consisting of genes VCA0010 to VCA0230 (control group) and genes VCA0271 to VCA0491 (belonging to the integron island) from chromosome two of V. cholerae . For each gene, the indicators codon usage contrast (CU),...”

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