Protein Info for GFF5990 in Variovorax sp. SCN45

Annotation: RND efflux system, inner membrane transporter

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 1045 signal peptide" amino acids 9 to 11 (3 residues), see Phobius details transmembrane" amino acids 12 to 28 (17 residues), see Phobius details amino acids 341 to 360 (20 residues), see Phobius details amino acids 367 to 389 (23 residues), see Phobius details amino acids 395 to 415 (21 residues), see Phobius details amino acids 439 to 460 (22 residues), see Phobius details amino acids 471 to 495 (25 residues), see Phobius details amino acids 542 to 560 (19 residues), see Phobius details amino acids 869 to 887 (19 residues), see Phobius details amino acids 894 to 914 (21 residues), see Phobius details amino acids 920 to 943 (24 residues), see Phobius details amino acids 968 to 986 (19 residues), see Phobius details amino acids 997 to 1023 (27 residues), see Phobius details TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 1 to 1035 (1035 residues), 1591 bits, see alignment E=0 PF00873: ACR_tran" amino acids 1 to 1023 (1023 residues), 1275.8 bits, see alignment E=0 PF03176: MMPL" amino acids 337 to 515 (179 residues), 34.7 bits, see alignment E=1.5e-12

Best Hits

Swiss-Prot: 60% identical to MEXB_PSEAE: Multidrug resistance protein MexB (mexB) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K03296, hydrophobic/amphiphilic exporter-1 (mainly G- bacteria), HAE1 family (inferred from 68% identity to aav:Aave_2111)

Predicted SEED Role

"RND efflux system, inner membrane transporter CmeB" in subsystem Multidrug Resistance Efflux Pumps or Multidrug efflux pump in Campylobacter jejuni (CmeABC operon)

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 (1045 amino acids)

>GFF5990 RND efflux system, inner membrane transporter (Variovorax sp. SCN45)
MARFFIDRPIFAWVIAIVIMLAGALSIGTLPLEQYPDIAPTKVSINATYTGASAKTIEDS
VTQVIEQKMKGLDRLVSMSSSSTSSGTARIELTFEAGTNADVAQMQVQNKLQQAQSQLPQ
SVQSQGVTVTKSGTDFLMIVSLISQDGSATATDIGDYISSSLLDVISRIDGVGDVQTLGS
GYAMRIWLDPAKLQKYSLMPSDVSSALTSQNTEVSAGQLGALPATAGQRLTATITARSKL
RTADQFREVIVKSDSSSGAIVRLGDVARIELGSESYTINSHFDGHPSAGMGVKLATGANA
LTVSNAVKAKLAELSPFFPNQMKAVVGYDTTPFVRISIEEVAKTLAEAMVLVVLIMYLFL
QNLRATLVPAIAVPVVLLGTFGVLSLLGYSINTLTMFGMVLAIGLLVDDAIVVVENVERL
MTEEGLSPKEATRKSMSEITGALVGIALVLSAVFIPMAFFGGSTGVIYRQFSVTIVAAML
LSVLVALTLSPALCATLLKPVQAGHHEEKRGFFGWFNRTFERNAERYRSGVGGLLHRGKR
SLLVYALLVGVLGMTFMRLPTSFLPDEDQGTLMAQVKLPASATDEQLQQTMKSFEQYLSS
QKEVSHYITLTGLSGDQATGNAFITLKDWRERGGKAQDAASLARRFTMDMATRASNANVF
VMLPPAVRGLGSNAGFDVQLQDLGGIGHEALVQAREQFLALARKDPALSQVRSNNLDDTP
QFSIDIDDRKAAALNLSTSDINDTLSSAMGGSYVNDFINNGRVKKVYVQADAPFRMQPDS
VDRWHVRNANSEMVPFSAFASSRWTYGSPQLSRYNGMSSFELIGDPAAGVSSGTAMDAVE
RIMKQLPQGIGYEWAGSSYQERLSGSQAPLLYAVSILFVFLCLAALYESWSVPFSVMLVV
PLGVLGAVLATKLAGLSNDVYFQVGLLATVGLSAKNAILIVEFAKQLQDEGMALVEATLQ
AVRLRLRPILMTSLAFMFGVLPLALSTGAGSGSRRAIGVGVLGGIATATVLGIFFVPLFF
VAIRRFFAQRKKAPAAPVLSALPEA