Protein Info for GFF3725 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 1000 1054 signal peptide" amino acids 1 to 27 (27 residues), see Phobius details transmembrane" amino acids 340 to 359 (20 residues), see Phobius details amino acids 366 to 388 (23 residues), see Phobius details amino acids 394 to 413 (20 residues), see Phobius details amino acids 438 to 460 (23 residues), see Phobius details amino acids 471 to 496 (26 residues), see Phobius details amino acids 538 to 557 (20 residues), see Phobius details amino acids 869 to 888 (20 residues), see Phobius details amino acids 895 to 916 (22 residues), see Phobius details amino acids 922 to 944 (23 residues), see Phobius details amino acids 969 to 990 (22 residues), see Phobius details amino acids 1002 to 1025 (24 residues), see Phobius details PF00873: ACR_tran" amino acids 1 to 1025 (1025 residues), 1241.9 bits, see alignment E=0 TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 1 to 1043 (1043 residues), 1601.6 bits, see alignment E=0

Best Hits

Swiss-Prot: 56% identical to ACRF_ECOLI: Multidrug export protein AcrF (acrF) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 76% identity to adk:Alide2_0399)

MetaCyc: 55% identical to multidrug efflux pump RND permease AcrB (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-354; TRANS-RXN-355; TRANS-RXN-356; TRANS-RXN-357; TRANS-RXN-359; TRANS-RXN0-592

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)

Search 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 (1054 amino acids)

>GFF3725 RND efflux system, inner membrane transporter (Variovorax sp. SCN45)
MAKFFIDRPIFAWVIALFILVVGGVAITQLPISQYPPVAPPAIVINVAYPGASAQTLEDS
VLSVIEREMNGSPGLIYMESVAQADGTGSITISFEAGTNDDLAQVDVQNRLSRATPRLPA
AVTQQGVRVDKSRNNFLMFVMLSSDNPNFDPVALGDYAARNVVPELQRVVGVGQAQLFGS
ENAMRIWIDPAKLQGYNLSATDVNNAIRAQNAQVSSGTIGDLPNIPGQAIAATVVVNGQL
ANVDQFKDIVLRANTDGSTVRLKDVARVELGGQSYATSARLNGVPAVGVGVQPTPNGNAL
QSAKAIRAKMAELERYFPQGVKWAIPYDSSRFVQISITEVVKTLLEAVALVFVVMFLFLQ
NWRYTIIPTIVVPIALLGTFASLLALGFSINVLTMFGMVLVIGIVVDDAIVVVENVERIM
SEEGLSPLEATRKAMRQISGAIIGVTVVLVSVFVPLAFFAGSTGNIYRQFSAVMVASIGF
SAFMALSLTPALCATLLKPVEAGHHHEKRGFFGWFNRGFSRTAKGYESLVARVLRRAARY
LVIYVAIIGAVVFTYTRLPSSFLPQEDQGNIIVNVQLPPGATQERALSVMQQVEGFILKQ
PEVQSMVGVMGFSFSGQGQNAGLAFVTLKDWDERKDPAHSASALAGRAFGALSGIRDAFI
YPLSPPPIPELGNASGFSFRLQDRSGAGHEALINARNQLLGMASQSKILSQVRPDGLEDA
PQLQIDIDRDKANALGVSFDAINATLSTALGSSYINDFPNRGRLQRVVVQADAPARMQPD
DLLKLNASNTQGLPVPLSAFATTKWVTGATQTVRYNGYPAIRISGDAAAGYSTGAAMAEM
EKLASQLPQGFGFEWTGQSREEKLAGSQAIVLYGFAILAVFLCLAALYESWSIPLSVILV
VPLGVLGVLLATMLRAYSNDVYFQVGLITIIGLSAKNAILIIEFAKDLQAQGKGVIESAL
AAAHLRFRPIVMTSLAFGLGVLPLVLASGAGSASQRAIGTGVLGGMVTGTALAVIFVPVF
FVVVRSLFKGSARQREADKRHAEAAGITEEPKHD