Family Search for PF07041 (DUF1327)

PF07041 hits 6 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

YdfR / b1555 Qin prophage; protein YdfR from Escherichia coli K-12 substr. MG1655 (see 3 papers)
ydfR / RF|NP_416073 uncharacterized protein ydfR from Escherichia coli K12 (see paper)
EC1303_c16750 YdfR family protein from Escherichia coli 1303
b1555 Qin prophage; predicted protein from Escherichia coli str. K-12 substr. MG1655
Aligns to 1:93 / 103 (90.3%), covers 100.0% of PF07041, 179.9 bits

• No evidence for a bovine mastitis Escherichia coli pathotype
  Leimbach, BMC genomics 2017
  • “...close proximity to each other in the genome of strain 1303 ( rzpQ EC1303_c16730, ydfR EC1303_c16750, quuQ_1 EC1303_c16790 (paralog to quuQ _2 in 1303 prophage 4), relE EC1303_c16830, relB EC1303_c16840, flxA EC1303_c16860, putative integrase EC1303_c16890, and hypothetical protein EC1303_c16900). All of these proteins belong to a...”
• 18th Congress of the European Hematology Association, Stockholm, Sweden, June 13–16, 2013
  , Haematologica 2013
• Global analysis of host response to induction of a latent bacteriophage
  Osterhout, BMC microbiology 2007
  • “...Periplasmic binding protein b1117 0.68 4.17 e-2 Unknown potCB -0.62 9.95 e-3 Spermidine transport permease b1555 -0.58 4.30 e-2 Unknown narY -0.60 4.93 e-2 Nitrate reductase 2, beta subunit pstB -0.61 3.08 e-2 Phosphate ABC transporter yafOP -0.73 2.74 e-2 Unknown lldPR -1.45 2.30 e-2 L-lactate...”

CDCO157_2530 YdfR family protein from Escherichia coli Xuzhou21
Aligns to 1:113 / 114 (99.1%), covers 98.9% of PF07041, 151.0 bits

• Global transcriptional and phenotypic analyses of Escherichia coli O157:H7 strain Xuzhou21 and its pO157_Sal cured mutant
  Zhao, PloS one 2013
  • “...using RNA-Seq data, only two non-synonymous SNPs, one each from two genes of unknown function (CDCO157_2530 [C to A] and CDCO157_2534 [G to T]), were confirmed to be genuine. 10.1371/journal.pone.0065466.g001 Figure 1.Transcriptomic Transcriptomic maps of Xuzhou21 and pO157_Sal cured Xuzhou21m. A-C. Transcriptomic comparisons of the chromosome,...”

Z3105 unknown protein encoded within prophage CP-933U from Escherichia coli O157:H7 EDL933
Aligns to 2:114 / 115 (98.3%), covers 98.9% of PF07041, 145.1 bits

• Schistosoma mansoni FES Tyrosine Kinase Involvement in the Mammalian Schistosomiasis Outcome and Miracidia Infection Capability in Biomphalaria glabrata
  Tavares, Frontiers in microbiology 2020
  • “...Plasmid Miniprep System (A1222), T7 RiboMAX Express RNAi System (P1700), SV Total RNA Isolation System (Z3105), and ImProm-II Reverse Transcription System (A3800). Sigma-Aldrich: GMEM (G6148), lactalbumin (L7252), HEPES (H3375), triiodothyronine (709611), hypoxanthine (H9636), hydrocortisone (H0888), Schneiders Insect Medium (S0146), propidium iodide (P4170), Dulbeccos modified Eagles medium...”
• Leishmania donovani parasite requires Atg8 protein for infectivity and survival under stress
  Giri, Cell death & disease 2019
  • “...from cells by using a SV total RNA isolation kit following the manufacturers protocol (Promega, Z3105). The respective cDNAs were synthesized by using the superscript III first strand synthesis system (Thermo Fisher Scientific). Gene expression analysis was done with RT-qPCR by using SYBR Green PCR master...”
• Influence of silver nanoparticles on growth and health of broiler chickens after infection with Campylobacter jejuni
  Vadalasetty, BMC veterinary research 2018
  • “...manufacturers protocol using SV Total RNA isolation system (Promega Corporation, Madison, WI, USA, cat. no. Z3105). Final RNA preparations were resuspended in RNase-free water and stored at -80C. The content of isolated RNA was quantified by UV-spectroscopy at 260nm/280nm with a NanoDrop ND-1000 Spectrophotometer (Thermo Fisher...”

c3181 Unknown protein encoded by prophage from Escherichia coli CFT073
Aligns to 8:120 / 190 (59.5%), covers 98.9% of PF07041, 140.7 bits

• Analysis of promoters controlled by the putative sigma factor AlgU regulating conversion to mucoidy in Pseudomonas aeruginosa: relationship to sigma E and stress response
  Martin, Journal of bacteriology 1994
  • “...ACKNOWLEDGMENTS 19. We thank J. Galan for the S. typhimunum c3181 DNA and G. Storz for E. coli oxyR mutants. This work was supported by grant AI31139 from the...”

c1434 Hypothetical protein ydfR from Escherichia coli CFT073
Aligns to 1:113 / 114 (99.1%), covers 98.9% of PF07041, 138.6 bits

• In vitro transcription profiling of the σS subunit of bacterial RNA polymerase: re-definition of the σS regulon and identification of σS-specific promoter sequence elements
  Maciag, Nucleic acids research 2011
  • “...in CFT073 as dppC N.A. 2.99 IG2428784_2429041-f Intergenic region, between yobD and yebN N.A. 3.10 c1434 Unknown, annotated in CFT073, ydfR N.A. 3.45 Z5945 Annotated in O157:H7 OH157:H7 EDL 933 (toxic peptide) N.A. 4.02 Z5868 Annotated in O157:H7 OH157:H7 EDL 933; yjgM , putative acetyltransferase N.A....”
• Rationally designed helix-turn-helix proteins and their conformational changes upon DNA binding
  Percipalle, The EMBO journal 1995 (secret)

S0230 hypothetical bacteriophage protein from Shigella flexneri 2a str. 2457T
Aligns to 1:99 / 104 (95.2%), covers 96.8% of PF07041, 133.7 bits

• Complete DNA sequence and analysis of the large virulence plasmid of Shigella flexneri
  Venkatesan, Infection and immunity 2001
  • “...throughout the plasmid (S0008, S0038, S0072, S0081, S0090, and S0230). Within the loci containing all three ORFs, the third ORF appears to have undergone an...”
  • “...over more than 90% of its length (Fig. 4). In addition, S0230 (266 aa) is 22% identical to ShET2 over 55% of its length (Table 2 and Fig. 4). There are five...”

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