Protein Info for GFF2441 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 1042 transmembrane" amino acids 12 to 31 (20 residues), see Phobius details amino acids 341 to 360 (20 residues), see Phobius details amino acids 367 to 388 (22 residues), see Phobius details amino acids 394 to 414 (21 residues), see Phobius details amino acids 440 to 463 (24 residues), see Phobius details amino acids 473 to 497 (25 residues), see Phobius details amino acids 539 to 560 (22 residues), see Phobius details amino acids 869 to 888 (20 residues), see Phobius details amino acids 895 to 915 (21 residues), see Phobius details amino acids 921 to 944 (24 residues), see Phobius details amino acids 970 to 990 (21 residues), see Phobius details amino acids 998 to 1024 (27 residues), see Phobius details PF00873: ACR_tran" amino acids 2 to 1025 (1024 residues), 1217.3 bits, see alignment E=0 TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 3 to 1028 (1026 residues), 1502.1 bits, see alignment E=0

Best Hits

Swiss-Prot: 56% identical to ACRD_ECOLI: Probable aminoglycoside efflux pump (acrD) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 60% identity to acd:AOLE_04070)

MetaCyc: 56% identical to multidrug efflux pump RND permease AcrD (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-1551; TRANS-RXN-1552; TRANS-RXN-360

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 (1042 amino acids)

>GFF2441 RND efflux system, inner membrane transporter (Variovorax sp. SCN45)
VIANFFIHRPVFAWVIAILIMLAGGVAIRTLPVSQYPDIAPPTVVVSANYPGASAQAVEN
SVTQVLEQQLKGIDGLLYFKSTSSSAGYADISVTFRQGIDPDTAQVQVQNKVSQATSRLP
QAVQQQGVTVYKSQNNFLLIVALYDETDRRTDTDVADWMASNLRDPVSRVDGVGSVQAFG
AAYAMRIWLDPHRLASYQLMPSDITAAITAQNTQVSVGEIGARPSPAGQQLNATVTALSR
LQTPEQFRGIVLKTQADGAVVRLGDVARVEIGNESYAETTRLNGHPAAGAAIMLAPGANA
LTTAKAVKARIAEMEPSLPPGLRVAYAEDTTRFVKISIQSVLKTLLEAIALVVVVMYLFL
QNWRATVIPAITVPVVLLGTFGVLAAFGYSINVLTLFGMVLAIGLLVDDAIVVVENVERV
MHEEGLDAKAATIKSMKEITGALIGIALVVSAVFLPMTFFGGSVGVIYRQFSVTIIASMA
LSVVVAIVLIPALCARFLKPGVPPRTRGFLGAFNRRFDAAQGRYVGLLGRILRKPLRFTA
VYAAIVAGMGLLYLGLPGGFLPEEDQGSVMVQVSLPAGATQGRTDAVNRAVEKHFLETEK
DTTDTIFTLAGWSYAGSGQHTGMAFVSLKDWSERKDPQKRAQAIVERASAALSKQQRDAE
VYGMVPPPIEGLGQSNGFEFWLQDTSGMGADKLVQKREALVRDANKDKRLQSVRANSIAN
TPQLQVDIDQVKASALRLSLDDVNTTLGIAWGGNYVNDFIDRGRVKRVYVQADAPYRSAP
EDMGQWFVRGSTGAMTPFSAFATTRWSQGASQLERYNGLPAVQIQGTAAHGTSSGTAMSA
VEAVARKQTGTGHAWSGLSYQERLSGGQAPLLFAVSILVVFLCLAALYESWSVPFSVMLV
IPLGVLGAVIAASLRGLSNDIYFQVGLLATIGLSAKNAILIIEFAEAALRRGVPLLDAVA
EGARLRLRPILMTSLAFLAGVVPLALATGAGSASQVAIGTGVFGGVLAATALGIFFVPLF
YLLVKRLAARWGGSRLGAERAA