Protein Info for GFF4246 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 1000 1055 signal peptide" amino acids 1 to 29 (29 residues), see Phobius details transmembrane" amino acids 341 to 361 (21 residues), see Phobius details amino acids 368 to 389 (22 residues), see Phobius details amino acids 395 to 418 (24 residues), see Phobius details amino acids 439 to 461 (23 residues), see Phobius details amino acids 471 to 497 (27 residues), see Phobius details amino acids 544 to 565 (22 residues), see Phobius details amino acids 881 to 899 (19 residues), see Phobius details amino acids 907 to 928 (22 residues), see Phobius details amino acids 934 to 955 (22 residues), see Phobius details amino acids 983 to 1004 (22 residues), see Phobius details amino acids 1011 to 1037 (27 residues), see Phobius details TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 4 to 1049 (1046 residues), 1189.8 bits, see alignment E=0 PF00873: ACR_tran" amino acids 4 to 1038 (1035 residues), 1174 bits, see alignment E=0 PF03176: MMPL" amino acids 234 to 509 (276 residues), 35.6 bits, see alignment E=8.1e-13 amino acids 847 to 1047 (201 residues), 30.4 bits, see alignment E=3e-11 PF02355: SecD_SecF_C" amino acids 340 to 497 (158 residues), 28.1 bits, see alignment E=2e-10

Best Hits

KEGG orthology group: None (inferred from 62% identity to avn:Avin_33870)

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 (1055 amino acids)

>GFF4246 RND efflux system, inner membrane transporter CmeB (Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868)
MKFTHFFIARPIFAIVLSLLMLLAGAIAFLKLPLSEYPAVTPPTVQVSASYPGANPQVIA
DTVAAPLEQVINGVDGMLYMNTQMAIDGRMVISIAFEQGTDPDMAQIQVQNRVSRALPRL
PEEVQRIGVVTEKTSPDMLMVVHLVSPQKRYDSLYLSNFAIRQVRDELARLPGVGDVLVW
GAGEYAMRVWLDPAKIANRGLTASDIVTALREQNVQVAAGSVGQQPEASAAFQMTVNTLG
RLTSEEQFGEIVVKIGADGEVTRLRDVARVTLGADAYTLRSLLNGEAAPALQIIQSPGAN
AIDVSNAIRGKMDELQQNFPQDIEYRIAYDPTVFVRASLQSVAITLLEALVLVVLVVVMF
LQTWRASIIPLVAVPVSLVGTFALMHLFGFSLNTLSLFGLVLSIGIVVDDAIVVVENVER
HISQGKSPGEAAKKAMDEVTGPILSITSVLTAVFIPSAFLAGLQGEFYRQFALTIAISTI
LSAINSLTLSPALAAILLRPHHDTAKADWLTRLMGTVTGGFFHRFNRFFDSASNRYVSAV
RRAVRGSVIVMVLYAGFVGLTWLGFHQVPNGFVPAQDKYYLVGIAQLPSGASLDRTEAVV
KQMSAIALAEPGVESVVVFPGLSVNGPVNVPNSALMFAMLKPFDEREDPSLSANAIAGKL
MHKFSHIPDGFIGIFPPPPVPGLGATGGFKLQIEDRAELGFEAMTKVQSEIMSKAMQTPE
LANMLASFQTNAPQLQVDIDRVKAKSMGVSLTDIFETLQINLGSLYVNDFNRFGRAWRVM
AQADAPFRMQQEDIGLLKVRNAKGEMIPLSAFVTIMRQSGPDRIIHYNGFPSVDISGGPA
PGFSSGQATDAIEKIVRETLPEGMVFEWTDLVYQEKQAGNSALAIFALAVLLAFLILAAQ
YNSWSLPFAVLLIAPMSLLSAIVGVWVSGGDNNIFTQIGFVVLVGLAAKNAILIVEFARA
KEHDGADPLTAVLEASRLRLRPILMTSFAFIAGVVPLVLATGAGAEMRHAMGIAVFAGML
GVTLFGLLLTPVFYVVVRRMALKRENRVDSHDQQA