Protein Info for DDA3937_RS14120 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 1000 1055 signal peptide" amino acids 1 to 28 (28 residues), see Phobius details transmembrane" amino acids 341 to 360 (20 residues), see Phobius details amino acids 367 to 389 (23 residues), see Phobius details amino acids 395 to 414 (20 residues), see Phobius details amino acids 442 to 461 (20 residues), see Phobius details amino acids 473 to 498 (26 residues), see Phobius details amino acids 540 to 558 (19 residues), see Phobius details amino acids 875 to 894 (20 residues), see Phobius details amino acids 901 to 921 (21 residues), see Phobius details amino acids 927 to 951 (25 residues), see Phobius details amino acids 976 to 996 (21 residues), see Phobius details amino acids 1004 to 1030 (27 residues), see Phobius details TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 2 to 1044 (1043 residues), 1543.7 bits, see alignment E=0 PF00873: ACR_tran" amino acids 2 to 1031 (1030 residues), 1233.4 bits, see alignment E=0

Best Hits

Swiss-Prot: 58% 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 60% identity to abu:Abu_2161)

MetaCyc: 58% 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)

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

See E0SKD8 at UniProt or InterPro

Protein Sequence (1055 amino acids)

>DDA3937_RS14120 multidrug efflux RND transporter permease subunit (Dickeya dadantii 3937)
MFSRFFIHRPVFAWVIAIVIMLAGALSIESLPVAQYPNVAPPSVAIKASYPGASADTLEN
SVTQVIEQQLTGLDGLLYFSSSSDSSGDVRITATFTQGTNPDTAQVQVQNKVQQATSRLP
TEVQQQGITVTKSQQDFLLIMALYDTTDKSTAADIADYMVSNLQDPLSRVEGVGSVQVFG
SQYAMRIWMDPTKLAAYSLMPSDISSAVETQNTQVSAGKIGAQPASSDQQLTATVTAQSR
LKTPAQFRDIIVKSESSGALVRLGDVARVELGNEDYTTTTRLNGHPAAGIAVMLSSGANA
LATAERVKAKVAEFTPQMPQGYEVSYPKDSTDFIKVSVEEVVQTLFEAIALVVLVMFLFL
QNLRATLIPAVAVPVVLLGTFGVLAVFGYSINTLTLFGMVLAIGLLVDDAIVVVENVERL
MRDQGLSPVAATEQSMREISSALVGVALVLSAVFLPMAFFGGSTGVIYRQFSITIVSSML
LSVVVALTLTPALCAALLKPAAHTPSNGNGFFARFNRGYENLQQRYTGRVAHVITGPWRY
LALYGLVIVVMGVLFLRLPGGFLPNEDQGDVMVQFTLPAGATETRTSKVGERIEHYFLSE
EKDNVEAIFVISGFNFSGSGQNAGMAFVALKNWSQRPGSANSSTAIAHRAMQALSAIRDA
QVFTMSPPAVQGLGQSDGFTFELQATGNTDRSRLLALRDQLLAEAAKNPRLTAVRPNDLV
QMPQLQVDLDYAKVRALGLSISDVTSTLSSAWGGTYVNDFIDRGRVKKVYIQGDAGSRGQ
PSDLDKWFVRGTDSSGNSVMTPFSAFAATRWSYGPESLSRYNGLASYEIQGAGAPGVSSG
KAMDEMEALARALPAGTTFAWSELSYQERLASGQAISLYAMSILVVFLCLAALYESWSIP
FSVMMVIPLGVVGAVLAATLRGLENDVYFQVALLTTIGLSAKNAILIVEFAEAAYRRGAT
LYEAALEGARTRLRPVLMTSLAFIAGVFPLAVATGAGANSRISIGSGIVGGTLTATVLAI
FLVPMFFVLVRRVFPGRHAPTSPSTSMPTPTQGEN