Protein Info for DDA3937_RS05735 in Dickeya dadantii 3937

Annotation: multidrug 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 1048 transmembrane" amino acids 12 to 30 (19 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 414 (21 residues), see Phobius details amino acids 438 to 458 (21 residues), see Phobius details amino acids 471 to 497 (27 residues), see Phobius details amino acids 538 to 556 (19 residues), see Phobius details amino acids 870 to 889 (20 residues), see Phobius details amino acids 896 to 916 (21 residues), see Phobius details amino acids 923 to 945 (23 residues), see Phobius details amino acids 972 to 992 (21 residues), see Phobius details amino acids 1004 to 1026 (23 residues), see Phobius details PF00873: ACR_tran" amino acids 1 to 1027 (1027 residues), 1382.8 bits, see alignment E=0 TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 1 to 1044 (1044 residues), 1811.4 bits, see alignment E=0 PF03176: MMPL" amino acids 330 to 496 (167 residues), 25.3 bits, see alignment E=1.1e-09 PF02355: SecD_SecF_C" amino acids 868 to 1021 (154 residues), 24.6 bits, see alignment E=2.4e-09

Best Hits

Swiss-Prot: 78% 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 68% identity to abo:ABO_0964)

MetaCyc: 78% 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)

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

See E0SD91 at UniProt or InterPro

Protein Sequence (1048 amino acids)

>DDA3937_RS05735 multidrug efflux RND transporter permease subunit (Dickeya dadantii 3937)
MAKFFIDRPIFAWVIAIMVMLTGTLAILKLPIAQYPTIAPPAVQITANYPGADAKTLQDT
VTQVIEQNMNGIDKLLYMSSNSDSSGTVQITLTFDADANPDIAQVQVQNKLQLAMPLLPQ
EVQQQGVSVQKSSSSFLMVLGFISDDNNMTQQDIADFVGASIKDPISRVRGVGDTQLFGA
QYAMRIWLDPDKLNNYQLTTSDVVSAIQVQNNQIAAGQLGGTPPVPGQKLNASIIAQTRL
NSPEQFGNILLKVNQDGSQVRLNNVARIELGGESYSVIARYNGRPAAGLGIKLATGANAL
DTASAVKAEITKLQSTFPAGLKVVYPYDTTPFVKISIYEVVKTLLEAIVLVFVVMYLFLQ
NFRATLIPTIAVPVVLLGTFSILSAFGYSINTLTMFAMVLAIGLLVDDAIVVVENVERVM
AEEGLSPKEATRKSMGQIQGALVGIALVLSAVFIPMAFSGGSTGAIYRQFSVTIVSSMVL
SVLVALILTPALCATILKPITNHGEKKGFFGWFNRLFDKSTHHYTNSVANILRSTGRYVV
VYLIVVAGLGLMFTRLPSSFLPQEDQGVLLTMVQLPVGATQESTQKVLDQVNDYYLQHEK
ENVKSVFTVNGFGFAGRGQNMGIAFASLKDWDERSGAANKVDAIIGRAFGAFSQIKEALV
IPFNIPAIVELGTASGFDFELIDQNNLGHDKLMAARNQLLGMIAQHPDTLVRVRPNGMED
MPQYRLEIDQEKAESLGVSIATINATLSTALGGTYVNDFIDRGRVKKVYVQAEAKFRMLP
NDIQKWYVRGTSGQMVPFSAFASERWEYGSPRLERYNGLPAVELVGEAAPGKSTGEAMAL
MEELAAQLPPGIGFDWTGMSYQERLAGNQAPALIIISAIVVFLCLAALYESWSIPFSVML
VVPLGVFGAVMAAGLRGLENDVYFKVGLLTTIGLSAKNAILIVEFAKDLMEKEGKGLVEA
TLDAVRMRLRPILMTSLAFILGVVPLVISTGAGSGAQNAVGTGVMGGMITATVLAIYFVP
VFFVVVRRRFGKKKEADDSHNEHTQTSH