Protein Info for ABID97_RS00325 in Variovorax sp. OAS795

Annotation: efflux RND transporter permease subunit

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 1053 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 540 to 558 (19 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 1024 (23 residues), see Phobius details TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 1 to 1043 (1043 residues), 1596.3 bits, see alignment E=0 PF00873: ACR_tran" amino acids 1 to 1025 (1025 residues), 1230.6 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 75% identity to adk:Alide2_0399)

MetaCyc: 56% identical to multidrug efflux pump RND permease AcrF (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-352; TRANS-RXN-354; TRANS-RXN-355; TRANS-RXN-367

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 (1053 amino acids)

>ABID97_RS00325 efflux RND transporter permease subunit (Variovorax sp. OAS795)
MAKFFIDRPIFAWVIALFVLVMGGVAITQLPISQYPPVAPPAIVINVAYPGASAQTLEDS
VLSVIEREMNGSPGLIYMESVAQADGSGTITISFEAGTNDDLAQVDVQNRLSRATPRLPA
AVTQQGVRVDKARNNFLMFVMLSSDNPAFDPVALGDYTARNIVPELQRVIGVGQAQLFGS
ENAMRIWIDPAKLQGYALSATDVNNAIRAQNAQVSSGTLGDLPNIPGQAIAATVVVNGQL
ANVEQFKNIVLRANTNGSTVRLKDVARVELGGQSYATSARLNGVPAVGIGVQPTPNGNAL
QSAKAIRAKMAELERFFPPGVKWDIPYDSSRFVQISITEVVKTLLEAVALVFVVMFLFLQ
NWRYTIIPTIVVPIALLGTFASLLALGFSINVLTMFGMVLVIGIVVDDAIVVVENVERIM
SEEGLSPLEATRKAMKQISGAIIGVTVVLISVFVPLAFFAGSTGNIYRQFSAVMVTSIAF
SAFMALSLTPALCATLLKPVEAGHHHEKRGFFGWFNRGFTRTAKGYESVVARILKRAARY
LVIYAVIIGAVVFTYMRLPSSFLPAEDQGNIIVNVQLPPGATQERALSVMQQVEGFILKQ
PEVQSMVGVMGFSFSGQGQNAGLAFVTLKDWEERKDPAHSASALAGRAFGALSGIRDAFI
YPLSPPPIPELGNASGFSFRLQDRSGAGHEALINARNQLLGMAGQSKILAQVRPDGLEDA
PQLQIDIDRDKANALGVSFDAINATLSTGLGSSYINDFPNRGRLQRVMVQADAPARMQPD
DLLRLNASNSQGQPVPLSAFATTRWVKGATQTVRYNGYPAIRISGDAAPGFSTGAAMAEM
EKLARQLPQGFGFEWTGQSREEKLAGSQAIVLYGFAILAVFLCLAALYESWTIPLAVILV
VPLGVLGVLLATMLRAYSNDVYFQVGLITIIGLSAKNAILIIEFAKDLQAQGKGIIESAL
AAAHLRFRPIVMTSLAFGLGVVPLVLASGAGSASQRAIGTGVLGGMVTGTALAVIFVPVF
FVVVRTLFKGSARQHEADKRHAEAAGIMEEKAT