Protein Info for LU632_RS18185 in Erwinia tracheiphila SCR3

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 1037 transmembrane" amino acids 10 to 30 (21 residues), see Phobius details 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 440 to 460 (21 residues), see Phobius details amino acids 470 to 493 (24 residues), see Phobius details amino acids 540 to 558 (19 residues), see Phobius details amino acids 873 to 891 (19 residues), see Phobius details amino acids 898 to 918 (21 residues), see Phobius details amino acids 924 to 947 (24 residues), see Phobius details amino acids 974 to 994 (21 residues), see Phobius details amino acids 1006 to 1028 (23 residues), see Phobius details PF00873: ACR_tran" amino acids 1 to 1029 (1029 residues), 1411.4 bits, see alignment E=0 TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 1 to 1035 (1035 residues), 1835 bits, see alignment E=0 PF03176: MMPL" amino acids 338 to 498 (161 residues), 22.9 bits, see alignment E=5.8e-09 PF02355: SecD_SecF" amino acids 874 to 1023 (150 residues), 25.4 bits, see alignment E=1.3e-09

Best Hits

Swiss-Prot: 82% identical to ACRB_ECOLI: Multidrug efflux pump subunit AcrB (acrB) from Escherichia coli (strain K12)

KEGG orthology group: K03296, hydrophobic/amphiphilic exporter-1 (mainly G- bacteria), HAE1 family (inferred from 69% identity to abo:ABO_0964)

MetaCyc: 69% identical to multidrug efflux pump RND permease MdtF (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-352; TRANS-RXN-359; 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)

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 (1037 amino acids)

>LU632_RS18185 efflux RND transporter permease subunit (Erwinia tracheiphila SCR3)
MAKFFIDRPIFAWVIAIIIMLAGVLSILKLPIEQYPNVAPPAVQITATYPGADAKTLQDS
VTQVIEQNMNGIDGLMYMSSNSDSSGTLQLTLTFQSGTDPDIAQVQVQNKLQLATPLLPQ
EVQQQGINVQKSSSSFLMVAGFVSDSDSMTQNDIADYVASNIKDAISRTPGVGDTQIFGA
QYAMRIWMDPHKLNNYQLTPIDVISAITAQNSQVAAGQLGGSPPVPGQQLNASIIAQTRL
TSTDEFGKILLKVNADGSRVLLKDIAKIELGGENYEVIARYNGKPASGIGIKLATGANAL
DTADAVKAQLAKLEPFFPSGLKVVYPYDTTPFVKISIMEVVKTLLEAIVLVFIVMYLFLQ
NFRATLIPTIAVPVVLLGTFAIISAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVM
AEEGLPPKEATRKSMEQIQGALVGIALVLSAVFIPMAFFGGSTGVIYRQFSITIVSAMVL
SVVVAMILTPALCSTMLKPISKGEHGKTTGFFGWFNRMFDKSTHHYTDSVGHIIRSTGRY
LVIYLVIVLGMAWLFIKLPSAFLPEEDQGLLLAQAQLPAGATQERTQAVLNKVTDYFLTN
EKDNVKSVFTVNGFGFAGRGQNTGIAFVSLKPWSERSGAANKVDGIAGRAMRAFGAIKDG
MVIPFNLPAIIELGNATGFDFQLIDQANLGHDALTQARNQLFGMIAQHPDTLVGVRPNGL
EDTPQYKLAIDQEKAEALGVSISDINTTLGAAWGGSYVNDFIDRGRVKKVYVMGTADSRM
LPNDIDKWFVRGSSGQMVPFSAFASAKWQYGSPRLERYNGLPSMELLGQAAPGKSSGEAM
ALMEQLASKLPQGIGYDWTGMSYQERLSGNQAPALYAISLIVVFLCLAALYESWSIPFAV
MLVVPLGVIGALIFTTLRGLSNDVYFVVGLLTTIGLSAKNAILIVEFAKDLMEKEGKGLV
ESTLEAVRMRLRPILMTSLAFILGVLPLTISTGAGSGAQNAVGTGVMGGMVTATVLAIFF
VPVFFVVVRRRFGKNKG