Protein Info for GFF4625 in Sphingobium sp. HT1-2

Annotation: RND efflux system, inner membrane transporter

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 1053 transmembrane" amino acids 12 to 33 (22 residues), see Phobius details amino acids 341 to 360 (20 residues), see Phobius details amino acids 367 to 389 (23 residues), see Phobius details amino acids 395 to 415 (21 residues), see Phobius details amino acids 438 to 460 (23 residues), see Phobius details amino acids 472 to 498 (27 residues), see Phobius details amino acids 537 to 557 (21 residues), see Phobius details amino acids 872 to 890 (19 residues), see Phobius details amino acids 897 to 917 (21 residues), see Phobius details amino acids 923 to 947 (25 residues), see Phobius details amino acids 972 to 992 (21 residues), see Phobius details amino acids 1000 to 1027 (28 residues), see Phobius details TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 2 to 1036 (1035 residues), 1540.2 bits, see alignment E=0 PF00873: ACR_tran" amino acids 3 to 1026 (1024 residues), 1235 bits, see alignment E=0 PF03176: MMPL" amino acids 343 to 523 (181 residues), 27.9 bits, see alignment E=1.1e-10

Best Hits

Swiss-Prot: 57% 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: None (inferred from 60% identity to ant:Arnit_3082)

MetaCyc: 54% 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

Find the best match in UniProt

Protein Sequence (1053 amino acids)

>GFF4625 RND efflux system, inner membrane transporter (Sphingobium sp. HT1-2)
VLSRFFIDRPIFAWVIAIGIMLAGLGGMLSLPVAQYPDIAPPGVGISATYPGASAETVET
SVTQVIEQQLTGIDGLMYFSSSSTSTGQSRITVTFQKGTDPDTAQVQVQNRVQQALSRLP
SAVQQQGLSVTKQQTDFLMLVGLYDETDNATQADIADYLVNNFQDSIARIDGIGATQIFG
SQYAMRIWLDPYKLAAVKLMPSDVETAIKAQNIEVSAGQIGADPAPANQQINATVTARAR
LETPDQFRNIVVKTQSDGSVVHLSDVARVELGNESYTTSARLNGHPASGMALQLAPGADA
LKTAELVKARVAELGGNLPHGYKIVYPRDTTPFIKLSVEEVVQTLIEAVVLVVIVMFVFL
QSWRATLVPAIAVPVVLLGTFGILALFGYSINTLTLFGMVLSIGLLVDDAIVVVENVERI
MEEEGLSPRDATIKSMMEIGSALVGIALVLSAVLLPMAFFGGSTGVIYRQFSITIVSSML
LSVVVALILSPALCATMLKPIDKAHREKGWFGKFNRWFERLTNGYVRRTQGVIGKRGIFW
GLYVVVLGILVVLFMRLPTSFLPVEDQGQVMVQVTLPSGAKSSRTNAAIDQVQSYFLNDE
KDNVAFAFIMTGFSFQGQGENVGQGFINLAPWDDRKGKTNEAGTIANRATKQLGAIRDAK
VLAMTPPAIRGLGQSNGFTFELLNSGGLSRERFLELRNQLIASAQQDPVLAGVRAASLED
TPQLKIDIDTEKLTVLGLTQANVDDVLSSAWGSTYVNDFVDRGRVKRVYMQADAPYRALP
SDLDNWMVRSSTTGEMVPFSAFATSHWVMGPSSVQRFNGLSSFEIQGQSAPGASSGDAMD
RMVALQKQLPAGTSYAWSGLSYQEQLSGGQAPLLYGLSVLVVFLCLAALYESWSIPLSVL
LVIPLGLIGAVLAVTLRGLENNIFFQVGLLTTMGLAAKNAILIVEFAELAHRNGRNALEA
ALEAARLRFRPILMTSLAFIAGVIPLAIATGAGAQSRVAIGTAVVGGMVTATVLAIFYVP
LFFVSIARLFGMDKKKPGGEPPAQEPPVDGVPA