Protein Info for PP_3456 in Pseudomonas putida KT2440

Annotation: Multidrug resistance protein MexB

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 1042 signal peptide" amino acids 1 to 27 (27 residues), see Phobius details transmembrane" amino acids 339 to 358 (20 residues), see Phobius details amino acids 365 to 386 (22 residues), see Phobius details amino acids 392 to 412 (21 residues), see Phobius details amino acids 434 to 457 (24 residues), see Phobius details amino acids 470 to 496 (27 residues), see Phobius details amino acids 538 to 556 (19 residues), see Phobius details amino acids 867 to 886 (20 residues), see Phobius details amino acids 893 to 913 (21 residues), see Phobius details amino acids 919 to 940 (22 residues), see Phobius details amino acids 968 to 988 (21 residues), see Phobius details amino acids 998 to 1021 (24 residues), see Phobius details PF00873: ACR_tran" amino acids 1 to 1021 (1021 residues), 1202.6 bits, see alignment E=0 TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 1 to 1031 (1031 residues), 1516.7 bits, see alignment E=0 PF03176: MMPL" amino acids 342 to 513 (172 residues), 39.6 bits, see alignment E=3.2e-14 amino acids 819 to 1023 (205 residues), 25.3 bits, see alignment E=7.3e-10

Best Hits

Swiss-Prot: 54% identical to MEXB_PSEAE: Multidrug resistance protein MexB (mexB) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K03296, hydrophobic/amphiphilic exporter-1 (mainly G- bacteria), HAE1 family (inferred from 63% identity to atu:Atu3202)

MetaCyc: 53% identical to multidrug efflux pump RND permease AcrD (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-1551; TRANS-RXN-1552; TRANS-RXN-360

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 Q88HA4 at UniProt or InterPro

Protein Sequence (1042 amino acids)

>PP_3456 Multidrug resistance protein MexB (Pseudomonas putida KT2440)
MPQFFIDRPVFAWVVALFILLAGALAIPQLPVAQYPNVAPPQVEIYAVYPGASAATMDES
VVSLIEQELNGADNLLYFESQSSLGSATITATFAPGTHPDLAQVDVQNRLKVVESRLPRP
VTQQGLQVEKVSTGFLLLATLTSEDGKLDETALSDILARNVMDEIRRLKGVGKAQLYGSE
RAMRIWIDPRKLIGFNLTPNDVAEAIAAQNAQVAPGSIGDLPSRSTQEITANVVVKGQLS
SPDEFAAIVLRANPDGSTVTIGDVARVEIGAQEYQYGTRLNGKPATAFSVQLSPGANAME
TATLVRAKMQDLARYFPEGVKYDIPYDTSPFVKVSIEQVINTLFEAMLLVFAVMFLFLQN
LRYTLIPTLVVPVALMGTFAVMLAMGFSVNVLTLFGMVLAIGILVDDAIVVVENVERIMA
EEGLPPKQATRKAMGQISGAIVGITLVLVAVFLPMAFMQGSVGVIYQQFSLSMAVSILFS
AFLALSLTPALCATLLKPVAKGEHHERKGFFGWFNRRFESMSNGYQRWVVQALKRSGRYL
LVYAVLLAVLGYGFSQLPTAFLPTEDQGYTITDIQLPPGASRMRTEQVAAQIEAHNAEEP
GVGNTTLILGFSFSGSGQNAALAFTTLKDWSERGADDSAQSIADRATMAFTQLKDAIAYS
VLPPPIDGLGESTGFEFRLQDRGGMGHAELMAARDQLLESASKSKVLTNVREASLAESPQ
VQLEIDRRQANALGVSFADIGTVLDVAVGSSYVNDFPNQGRMQRVVVQAEGDQRSQVEDL
LNIHVRNDSGKMVPLGAFVQARWVSGPVQLTRYNGYPAVSISGEPAAGYSSGEAMAEVER
LVAQLPAGTGLEWTGLSLQERLSGSQAPLLMALSLLVVFLCLAALYESWSIPTAVLLVVP
LGVLGAVLAVTLRGMPNDVFFKVGLITLIGLSAKNAILIIEFAKHLVDQGVDAADAAVQA
ARLRLRPIVMTSLAFILGVVPLAIASGASSASQQAIGTGVIGGMLSATLAVVFVPVFFVV
VMRLSGRRQAHDSDGQPVPRES