Protein Info for GFF2878 in Pseudomonas sp. DMC3

Annotation: multidrug efflux RND transporter permease subunit OqxB7

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 100 200 300 400 500 600 700 800 900 1000 1063 signal peptide" amino acids 1 to 27 (27 residues), see Phobius details transmembrane" amino acids 28 to 30 (3 residues), see Phobius details amino acids 342 to 362 (21 residues), see Phobius details amino acids 369 to 389 (21 residues), see Phobius details amino acids 395 to 416 (22 residues), see Phobius details amino acids 441 to 463 (23 residues), see Phobius details amino acids 473 to 499 (27 residues), see Phobius details amino acids 549 to 567 (19 residues), see Phobius details amino acids 881 to 899 (19 residues), see Phobius details amino acids 906 to 928 (23 residues), see Phobius details amino acids 934 to 955 (22 residues), see Phobius details amino acids 983 to 1003 (21 residues), see Phobius details amino acids 1011 to 1037 (27 residues), see Phobius details PF00873: ACR_tran" amino acids 3 to 1038 (1036 residues), 1274.5 bits, see alignment E=0 TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 3 to 1051 (1049 residues), 1188.2 bits, see alignment E=0 PF02355: SecD_SecF_C" amino acids 342 to 498 (157 residues), 24.6 bits, see alignment E=2.3e-09 PF03176: MMPL" amino acids 349 to 501 (153 residues), 38.7 bits, see alignment E=8.8e-14 amino acids 885 to 1048 (164 residues), 25.9 bits, see alignment E=6.9e-10

Best Hits

KEGG orthology group: None (inferred from 83% identity to avn:Avin_33870)

Predicted SEED Role

"Multidrug efflux transporter MexF"

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

Find the best match in UniProt

Protein Sequence (1063 amino acids)

>GFF2878 multidrug efflux RND transporter permease subunit OqxB7 (Pseudomonas sp. DMC3)
MNFSQFFISRPIFAAVLSLLILIAGAISLFQLPISEYPEVVPPTVVVRANFPGANPKVIG
ETVAAPLEQAITGVENMLYMSSQSTADGKITLTITFALGTDLDNAQVQVQNRVTRTEPKL
PEEVTRIGITVDKASPDLTMVVHLTSPDKRYDMLYLSNYAILNIKDELARLGGVGDVQLF
GMGDYSLRVWLDPNKTASRNLTATDVVTAIREQNRQVAAGQLGAPPAPTAQSFQLSVNTQ
GRLVSEEEFENIVIRAGDDGEITRLKDIARIELGSSQYALRSLLNNQPAVAIPIFQRPGS
NAIDISNEVRGKMEELKKGFPQGMDYSIVYDPTIFVRGSIEAVVHTLFEALILVVLVVIL
FLQTWRASIIPLVAVPVSLIGTFAVMHLFGFSLNALSLFGLVLAIGIVVDDAIVVVENVE
RNIELGLTPVEATKRAMREVTGPIVATALVLCAVFIPAAFISGLTGQFYKQFALTIAIST
VISAFNSLTLSPALAAVLLKSHDAPKDRFSKVLDRIFGGWLFRPFNRFFDRASHGYVGTV
RRVIRSSGIALLVYAGLMVLTFFGFSSTPTGFVPGQDKQYLVAFAQLPDAASLDRTEDVI
KRMSDLALKQPGVESAVAFPGLSINGFTNSPNAGIVFVTLKPFDERKDPSMSAGAIAGAL
NGQYANIQEAYMAIFPPPPVQGLGTIGGFRLQIEDRGNLGYDELYKETMNIINKSHNVPE
LAGLFTSYTVNVPQVDAAIDREKAKTHGVAVSDIFDTLQIYLGSLYANDFNRFGRTYQVN
VQAEQQFRLESDQIGQLKVRNNKGEMIPLATFIKVSDTSGPDRVMHYNGFITAEINGAAA
PGYSSGQAEKAIEKLLKEELPNGMTYEWTDLTYQQILSGNTALFVFPLCVLLAFLVLAAQ
YESWSLPLAVILIVPMTLLSAITGVIISGGDNNIFTQIGLIVLVGLACKNAILIVEFAKD
KQEEGLDPLAAVLEACRLRLRPILMTSFAFIMGVVPLVFSSGAGAEMRHAMGVAVFSGML
GVTFFGLLLTPVFYVLIRNFVERGEQRKAAKAHTLQKPLEAQQ