Protein Info for PP_1385 in Pseudomonas putida KT2440

Annotation: Probable efflux pump membrane transporter TtgB

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 1050 transmembrane" amino acids 10 to 28 (19 residues), see Phobius details amino acids 339 to 359 (21 residues), see Phobius details amino acids 366 to 388 (23 residues), see Phobius details amino acids 394 to 413 (20 residues), see Phobius details amino acids 440 to 460 (21 residues), see Phobius details amino acids 471 to 494 (24 residues), see Phobius details amino acids 539 to 557 (19 residues), see Phobius details amino acids 871 to 890 (20 residues), see Phobius details amino acids 897 to 917 (21 residues), see Phobius details amino acids 923 to 946 (24 residues), see Phobius details amino acids 972 to 993 (22 residues), see Phobius details amino acids 1003 to 1027 (25 residues), see Phobius details TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 1 to 1046 (1046 residues), 1875.4 bits, see alignment E=0 PF00873: ACR_tran" amino acids 1 to 1026 (1026 residues), 1355.3 bits, see alignment E=0 PF02355: SecD_SecF_C" amino acids 870 to 1017 (148 residues), 21 bits, see alignment E=1.9e-08

Best Hits

Swiss-Prot: 100% identical to MEPB_PSEPU: Multidrug/solvent efflux pump membrane transporter MepB (mepB) from Pseudomonas putida

KEGG orthology group: K03296, hydrophobic/amphiphilic exporter-1 (mainly G- bacteria), HAE1 family (inferred from 64% identity to abo:ABO_0964)

MetaCyc: 60% identical to multidrug efflux pump RND permease MdtF (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-352; TRANS-RXN-359; 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)

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 Q88N31 at UniProt or InterPro

Protein Sequence (1050 amino acids)

>PP_1385 Probable efflux pump membrane transporter TtgB (Pseudomonas putida KT2440)
MSKFFIDRPIFAWVIALVIMLVGALSILKLPINQYPSIAPPAIAIAVTYPGASAQTVQDT
VVQVIEQQLNGIDNLRYVSSESNSDGSMTITATFEQGTNPDTAQVQVQNKLNLATPLLPQ
EVQQQGIRVTKAVKNFLLVIGLVSEDGSMTKDDLANYIVSNMQDPISRTAGVGDFQVFGA
QYAMRIWLDPAKLNKFQLTPVDVKTAVAAQNVQVSSGQLGGLPALPGTQLNATIIGKTRL
QTAEQFESILLKVNKDGSQVRLGDVAQVGLGGENYAVSAQFNGKPASGLAVKLATGANAL
DTAKALRETIKGLEPFFPPGVKAVFPYDTTPVVTESISGVIHTLIEAVVLVFLVMYLFLQ
NFRATIITTMTVPVVLLGTFGILAAAGFSINTLTMFAMVLAIGLLVDDAIVVVENVERVM
SEEGLPPKEATKRSMEQIQGALVGIALVLSAVLLPMAFFGGSTGVIYRQFSITIVSAMGL
SVLVALIFTPALCATMLKPLKKGEHHTAKGGFFGWFNRNFDRSVNGYERSVGAILRNKVP
FLLAYALIVVGMIWLFARIPTAFLPEEDQGVLFAQVQTPAGSSAERTQVVVDQMREYLLK
DEADTVSSVFTVNGFNFAGRGQSSGMAFIMLKPWDERSKENSVFALAQRAQQHFFTFRDA
MVFAFAPPAVLELGNATGFDVFLQDRGGVGHEKLMEARNQFLAKAAQSKILSAVRPNGLN
DEPQYQLTIDDERASALGVTIADINNTLSIALGASYVNDFIDRGRVKKVYIQGEPSARMS
PEDLQKWYVRNGAGEMVPFSSFAKGEWTYGSPKLSRYNGVEAMEILGAPAPGYSTGEAMA
EVERIAGELPSGIGFSWTGMSYEEKLSGSQMPALFALSVLFVFLCLAALYESWSIPIAVV
LVVPLGIIGALIATSLRGLSNDVYFLVGLLTTIGLAAKNAILIVEFAKELHEQGRSLYDA
AIEACRMRLRPIIMTSLAFILGVVPLTIASGAGAGSQHAIGTGVIGGMISATVLAIFWVP
LFFVAVSSLFGSKEPEKDVTPENPRYEAGQ