Protein Info for GFF2116 in Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Annotation: RND efflux system, inner membrane transporter CmeB

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 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 415 (22 residues), see Phobius details amino acids 438 to 460 (23 residues), see Phobius details amino acids 471 to 497 (27 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 973 to 992 (20 residues), see Phobius details amino acids 1006 to 1028 (23 residues), see Phobius details PF00873: ACR_tran" amino acids 1 to 1029 (1029 residues), 1441.1 bits, see alignment E=0 TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 1 to 1035 (1035 residues), 1865.2 bits, see alignment E=0 PF03176: MMPL" amino acids 336 to 514 (179 residues), 24.7 bits, see alignment E=1.7e-09

Best Hits

Swiss-Prot: 89% identical to ACRF_ECOLI: Multidrug export protein AcrF (acrF) 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: 89% 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)

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)

>GFF2116 RND efflux system, inner membrane transporter CmeB (Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868)
MANFFIRRPIFAWVLAIILMMAGALAIMQLPVAQYPTIAPPAVSISATYPGADAQTVQDT
VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ
EVQQQGISVEKSSSSFLMVAGFVSDNPNTTQDDISDYVASNIKDSISRLNGVGDVQLFGA
QYAMRIWLDANLLNKYQLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRL
KDPEEFGKVTLRVNTDGSVVHLKDVARIELGGENYNVVARINGKPASGLGIKLATGANAL
DTATAIKVKLAELQPFFPQGMKVVYPYDTTPFVKISIHEVVKTLFEAIILVFLVMYLFLQ
NIRATLIPTIAVPVVLLGTFAVLAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVM
MEDNLSPREATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMAL
SVLVALILTPALCATLLKPVSAEHHEKKSGFFGWFNTRFDHSVNHYTNSVSGIVRNTGRY
LIIYLLIVVGMAVLFLRLPTSFLPEEDQGVFLTMIQLPSGATQERTQKVLDQVTHYYLNN
EKANVESVFTVNGFSFSGQGQNSGMAFVSLKPWEERNGEENSVEAVIARATRAFSQIRDG
LVFPFNMPAIVELGTATGFDFELIDQGGLGHDALTKARNQLLGMVAKHPDLLVRVRPNGL
EDTPQFKLDVDQEKAQALGVSLSDINETISAALGGYYVNDFIDRGRVKKVYVQADAQFRM
LPGDINNLYVRSANGEMVPFSTFSSARWIYGSPRLERYNGMPSMELLGEAAPGRSTGEAM
SLMENLASQLPNGIGYDWTGMSYQERLSGNQAPALYAISLIVVFLCLAALYESWSIPFSV
MLVVPLGVVGALLAASLRGLNNDVYFQVGLLTTIGLSAKNAILIVEFAKDLMEKEGRGLI
EATLEASRMRLRPILMTSLAFILGVMPLVISRGAGSGAQNAVGTGVMGGMLTATLLAIFF
VPVFFVVVKRRFNRHHD