Family Search for PF04304 (DUF454)
PF04304 hits 21 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
Rmet_0221 YbaN family protein from Cupriavidus metallidurans CH34
Aligns to 20:135 / 150 (77.3%), covers 100.0% of PF04304, 146.7 bits
- Phenotypic and Genetic Characterization of Temperature-Induced Mutagenesis and Mortality in Cupriavidus metallidurans
Van, Frontiers in microbiology 2021 - “...-derivative of CH34 This study CH34-Km R CH34 harboring a EZ-Tn5 < KAN 2> in Rmet_0221 coding for a conserved hypothetical protein, Km R This study CH34 1009 CH34 Rmet_1009:: tet , Tc R This study CH34-TIMM R1 1009 CH34-TIMM R1 Rmet_1009:: tet , Tc R...”
- “...C. metallidurans CH34 strain, i.e., CH34-Km R , containing a kanamycin resistance cassette in gene Rmet_0221, coding for a hypothetical protein, was used in the competition assays. The different strains, i.e., CH34-TIMM R1 , CH34-TIMM R2 , CH34 and CH34-Km R ( Table 1 ), were...”
BUE60_21160 YbaN family protein from Pseudomonas syringae pv. actinidiae
Aligns to 15:129 / 134 (85.8%), covers 100.0% of PF04304, 143.8 bits
YbaN / b0468 DUF454 domain-containing inner membrane protein YbaN from Escherichia coli K-12 substr. MG1655 (see 2 papers)
Z0585 putative gene 58 from Escherichia coli O157:H7 EDL933
b0468 conserved inner membrane protein from Escherichia coli str. K-12 substr. MG1655
SF5M90T_438 DUF454 family protein from Shigella flexneri 5a str. M90T
Aligns to 3:117 / 125 (92.0%), covers 99.1% of PF04304, 141.6 bits
- A divalent ion is crucial in the structure and dominant-negative function of ID proteins, a class of helix-loop-helix transcription regulators
Wong, PloS one 2012 - “...constructs for expression and crystallization ID2 HLH (residues 2482) was cloned from full-length cDNA (Genecopoeia, Z0585) using Gateway (Invitrogen) as per manufacturer's instructions, into the pDONR221 vector (Invitrogen). Due to known instability issues of ID2, a C-terminal 14 amino acid long polypeptide (LKPSFLVQSGDIAS) was included to...”
- COLOMBOS: access port for cross-platform bacterial expression compendia
Engelen, PloS one 2011 - “...Fur, NrdR b4291 fecA Fe 3+ dicitrate transport protein fecABCDE + + Fur, CRP, PdhR b0468 ybaN Inner membrane protein ybaN + Predicted b0804 ybiX PKHD-type hydroxylase ybiX + Predicted; Fur dependent expression b1018 efeO UPF0409 protein efeUOB + Predicted; functional in related strain b1452 yncE...”
- RNA-seq analysis of the influence of anaerobiosis and FNR on Shigella flexneri
Vergara-Irigaray, BMC genomics 2014 - “...hypothetical protein 0.81 SF5M90T_479 ybbF conserved hypothetical protein -1.19 SF5M90T_2195 rtn conserved hypothetical protein -1.50 SF5M90T_438 ybaN conserved hypothetical protein -1.73 SF5M90T_1853 conserved hypothetical protein -2.03 -2.58 SF5M90T_1647 conserved hypothetical protein -2.11 SF5M90T_983 ymcD conserved hypothetical protein -2.34 SF5M90T_4094 yjbA P-starvation inducible protein PsiE -2.51 1.69...”
BN5_1641 YbaN family protein from Pseudomonas oleovorans CECT 5344
Aligns to 14:128 / 132 (87.1%), covers 100.0% of PF04304, 141.5 bits
- Putative small RNAs controlling detoxification of industrial cyanide-containing wastewaters by Pseudomonas pseudoalcaligenes CECT5344
Olaya-Abril, PloS one 2019 - “...BN5_1637, FAD-dependent oxidoreductase NitH; BN5_1638, isocitrate dehydrogenase kinase/phosphatase-IDH; BN5_1639, uncharacterized protein; BN5_1640, -lactamase domain-containing protein; BN5_1641, inner membrane protein; BN5_1642, YecA family protein; BN5_1643, RNA-directed DNA polymerase; BN5_1644, uncharacterized protein; BN5_1645, RNA-directed DNA polymerase. J. BN5_1896, uncharacterized protein; BN5_1897, thiol-disulfide isomerase and thioredoxins protein; BN5_1898, 2-dehydro-3-deoxyphosphogluconate/4-hydroxy-2-oxoglutarate...”
SEET0819_09365, STM14_0567 DUF454 family protein from Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
Aligns to 3:117 / 125 (92.0%), covers 99.1% of PF04304, 139.5 bits
HD1939 conserved hypothetical protein from Haemophilus ducreyi 35000HP
Aligns to 2:117 / 130 (89.2%), covers 98.3% of PF04304, 134.4 bits
VC1052 conserved hypothetical protein from Vibrio cholerae O1 biovar eltor str. N16961
Aligns to 7:121 / 132 (87.1%), covers 100.0% of PF04304, 132.5 bits
BQ00830 hypothetical protein from Bartonella quintana str. Toulouse
Aligns to 12:127 / 128 (90.6%), covers 99.1% of PF04304, 131.8 bits
- Bartonella quintana deploys host and vector temperature-specific transcriptomes
Abromaitis, PloS one 2013 - “...1.41 0.02 5.35 1.59 7 2.68 BQ00240 thioredoxin trxA 0.68 0.71 1.28 1.79 2 2.60 BQ00830 hypothetical protein 0.82 0.53 0 2.09 2 2.56 BQ07681 hypothetical protein 0.70 0.58 0 2.11 3 2.43 BQ11010 hypothetical protein 0.92 0.32 0 1.92 1 2.36 BQ09250 cold shock protein...”
- “...8.50E-71 306837668 BQ00570 LysM domain/BON superfamily protein 2.00E-52 EHH06667.1 LysM domain/BON superfamily protein 3.00E-47 325291490 BQ00830 - - - inner membrane protein ybaN 1.70E-23 358048936 BQ02770 XRE family transcriptional regulator 4.00E-08 YP_002004972.1 conserved hypothetical protein Bartonella sp. AR 15-3 3.90E-09 319405804 BQ05030 glycosyl transferase family protein...”
APL_1806 hypothetical protein from Actinobacillus pleuropneumoniae L20
Aligns to 2:117 / 129 (89.9%), covers 97.4% of PF04304, 131.7 bits
SPO0005 YbaN family protein from Ruegeria pomeroyi DSS-3
Aligns to 2:116 / 117 (98.3%), covers 98.3% of PF04304, 128.1 bits
SMb20557 CONSERVED HYPOTHETICAL PROTEIN from Sinorhizobium meliloti 1021
Aligns to 1:106 / 111 (95.5%), covers 90.4% of PF04304, 127.3 bits
SMLT_RS19415 YbaN family protein from Stenotrophomonas maltophilia K279a
Aligns to 22:136 / 141 (81.6%), covers 99.1% of PF04304, 127.3 bits
- Putative Iron Acquisition Systems in Stenotrophomonas maltophilia
Kalidasan, Molecules (Basel, Switzerland) 2018 - “...Heme ABC transporter, ATPase component SMLT_RS11325 99% (K279a) Hyp1 Hypothetical protein related to heme utilization SMLT_RS19415 98% (1337) HmuU Heme ABC transporter, permease protein SMLT_RS11320 92% (K279a) HmuT Heme ABC transporter, cell surface heme and hemoprotein receptor SMLT_RS11315 97% (D457) Subsystem: Heme, hemin uptake and utilization...”
ABLAC_16850 YbaN family protein from Acinetobacter baumannii LAC-4
Aligns to 33:146 / 146 (78.1%), covers 97.4% of PF04304, 126.6 bits
ACICU_RS04605, DMO12_RS04720 YbaN family protein from Acinetobacter baumannii ACICU
ACICU_00880 hypothetical protein from Acinetobacter baumannii ACICU
Aligns to 33:146 / 146 (78.1%), covers 97.4% of PF04304, 126.5 bits
- Genomics of Acinetobacter baumannii iron uptake
Artuso, Microbial genomics 2023 - “...hphA DMO12_RS04700 Slam-dependent haemophore hsmA DMO12_RS04705 Hemophilin secretion modulator DMO12_RS04710 TonB-related protein DMO12_RS04715 Haem oxygenase DMO12_RS04720 Hypothetical protein basJ DMO12_RS13105 Acinetobactin biosynthesis isochorismate synthase basI DMO12_RS13110 Acinetobactin biosynthesis phosphopantetheinyl transferase basH DMO12_RS13115 Acinetobactin biosynthesis thioesterase barB DMO12_RS13120 Acinetobactin export ABC transporter permease/ATP-binding subunit barA DMO12_RS13125 Acinetobactin...”
- Chromosome Architecture and Gene Content of the Emergent Pathogen Acinetobacter haemolyticus
Castro-Jaimes, Frontiers in microbiology 2020 - “...spot 6 in the representative strains, and two of them had recombination signals (ACICU_RS04580 and ACICU_RS04605). All these data showed that A. haemolyticus can uptake hemin for iron acquisition and that the gene clusters had been integrated via recombination with neighboring genes. Regarding virulence factors characterized...”
- New Shuttle Vectors for Gene Cloning and Expression in Multidrug-Resistant Acinetobacter Species
Lucidi, Antimicrobial agents and chemotherapy 2018 - “...baumannii ACICU gene cluster from the ACICU_00873 to ACICU_00880 genes) directly into pVRL1 (data not shown), supporting the potential of this plasmid in...”
- Antimicrobial Activity of Gallium Compounds on ESKAPE Pathogens
Hijazi, Frontiers in cellular and infection microbiology 2018 - “...bp DNA fragment encompassing eight genes of the hemO cluster of ACICU (from ACICU_00873 to ACICU_00880 locus) was obtained by PCR amplification using primers HemO_FW (5-CATTTGGTTTCCGAGTCTCG-3) and HemO_RV (5-CCATGATGCGTACCATGCA-3). The PCR product was purified by the PCR Clean-Up System (Promega) and blunt-end ligated to the SmaI...”
NWMN_0112 hypothetical protein from Staphylococcus aureus subsp. aureus str. Newman
SA0161 hypothetical protein from Staphylococcus aureus subsp. aureus N315
SAOUHSC_00131 hypothetical protein from Staphylococcus aureus subsp. aureus NCTC 8325
Aligns to 2:117 / 127 (91.3%), covers 97.4% of PF04304, 126.0 bits
- Fur regulation of Staphylococcus aureus heme oxygenases is required for heme homeostasis
Lojek, International journal of medical microbiology : IJMM 2018 - “...isdCDEFsrtBisdG operons. The endogenous promoter for isdI was defined as the intergenic region between orfX (NWMN_0112) and aldA (NWMN_0113). However, the Fur box for isdI jis contained within the 3 region of the orfX operon, and this region was also included in the constructed promoter for...”
- Induction of virulence gene expression in Staphylococcus aureus by pulmonary surfactant
Ishii, Infection and immunity 2014 - “...California, Berkeley Gene no. NWMN_0093 NWMN_0095 NWMN_0112 NWMN_0207 NWMN_0221 NWMN_0223 NWMN_0224 NWMN_0225 NWMN_0232 NWMN_0233 NWMN_0245 NWMN_0246 NWMN_0360...”
- Characterizing the effects of inorganic acid and alkaline shock on the Staphylococcus aureus transcriptome and messenger RNA turnover
Anderson, FEMS immunology and medical microbiology 2010 - “...family protein Unkown function sa_c2968s2524_a_at 3.3 ND 2.5 SA0156 hypothetical protein sa_c3224s2774_a_at 7.8 2.5 2.5 SA0161 hypothetical protein sa_c6700s5841_a_at 2.1 2.5 2.5 SA0259 hypothetical protein sa_c7203s6269_a_at 6.5 ND 2.5 SA0445 hypothetical protein sa_c7760s6763_at * 23.5 15 30 SA0625 hypothetical protein sa_c8897s7814_a_at 6.5 ND 2.5 SA0692 hypothetical...”
- Characterization of the Staphylococcus aureus heat shock, cold shock, stringent, and SOS responses and their effects on log-phase mRNA turnover
Anderson, Journal of bacteriology 2006 - “...putative MSSA476-SAS070 N315-SA0413 N315-SA0751 N315-SA1186 N315-SA2496 SA0161 SA0299 SA0436 SA0448 SA0497 SA0537 SA0692 SA1033 SA1372 SA1375 SA1438 SA1524...”
- “...N315-SA1777 N315-SA1832 N315-SA2299 N315-SA0326 N315-SA0551 N315-SA1829 SA0161 SA0191 SA0215 SA0252 SA0255 SA0259 SA0314 SA0436 SA0568 SA0625 SA0641 SA0814...”
- Transcriptomic analyses reveal the potential antibacterial mechanism of citral against Staphylococcus aureus
Liao, Frontiers in microbiology 2023 - “...ferrochelatase SAOUHSC_02681 5.770892267 8.0905E-128 nitrate reductase subunit alpha SAOUHSC_02680 5.655444057 1.3733E-110 nitrate reductase subunit beta SAOUHSC_00131 5.423736733 3.31075E-51 YbaN family protein SAOUHSC_02679 5.263068749 3.38926E-75 respiratory nitrate reductase subunit delta SAOUHSC_02645 5.222935859 2.92178E-05 LytTR family DNA-binding domain-containing protein 3.2.3. Go functional enrichment analysis GO enrichment analysis was...”
- Functional analysis of the EsaB component of the Staphylococcus aureus Type VII secretion system
Casabona, Microbiology (Reading, England) 2017 - “...protein FhuA 7.0 SAOUHSC_00071 sirC 5.3 Involved in staphyloferrin B transport into the cytoplasm 4.6 SAOUHSC_00131 5.3 Putative membrane protein 6.1 SAOUHSC_02821 5.8 Putative membrane protein ns SAOUHSC_02719 6.2 ABC transporter ATP-binding protein 5.5 SAOUHSC_01920 6.3 Putative lipoprotein ns SAOUHSC_02428 htsB 6.3 Heme transport system permease...”
- Haem-iron plays a key role in the regulation of the Ess/type VII secretion system of Staphylococcus aureus RN6390
Casabona, Microbiology (Reading, England) 2017 - “...isdI 5.7 Haem-degrading monooxygenase IsdI SAOUHSC_01086 isdF 6.1 ABC permease IsdF Fur [ 65 ] SAOUHSC_00131 6.1 Putative membrane spanning protein SAOUHSC_01088 srtB 6.2 Sortase SrtB Fur [ 65 ] SAOUHSC_01084 isdD 6.2 ATP-hydrolysing and haem-binding protein IsdD Fur [ 65 ] SAOUHSC_02432 6.2 Unknown, hypothetical...”
PP1004 conserved hypothetical protein from Pseudomonas putida KT2440
Aligns to 11:125 / 137 (83.9%), covers 100.0% of PF04304, 122.7 bits
Smlt3895 putative transmembrane protein from Stenotrophomonas maltophilia K279a
Aligns to 2:117 / 155 (74.8%), covers 99.1% of PF04304, 119.4 bits
- HemU and TonB1 contribute to hemin acquisition in Stenotrophomonas maltophilia
Liao, Frontiers in cellular and infection microbiology 2024 - “...degradation of hemin to produce biliverdin, ferrous iron, and carbon monoxide. The protein encoded by Smlt3895 was predicted to be a 155-aa inner membrane transmembrane protein and displayed no significant similarity with the proteins of known functions. The proteins encoded by Smlt3894 , Smlt3893 , and...”
DIP2356 Putative conserved membrane protein from Corynebacterium diphtheriae NCTC 13129
Aligns to 3:120 / 125 (94.4%), covers 97.4% of PF04304, 119.1 bits
Dshi_1454 hypothetical protein from Dinoroseobacter shibae DFL 12
Aligns to 13:127 / 165 (69.7%), covers 99.1% of PF04304, 111.3 bits
SH1866 hypothetical protein from Staphylococcus haemolyticus JCSC1435
Aligns to 2:117 / 128 (90.6%), covers 97.4% of PF04304, 108.2 bits
EF2922 conserved hypothetical protein from Enterococcus faecalis V583
Aligns to 3:119 / 128 (91.4%), covers 96.5% of PF04304, 100.7 bits
Or search for genetic data about PF04304 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory