Protein Info for GFF3951 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 1059 transmembrane" amino acids 10 to 30 (21 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 415 (22 residues), see Phobius details amino acids 438 to 459 (22 residues), see Phobius details amino acids 470 to 496 (27 residues), see Phobius details amino acids 546 to 564 (19 residues), see Phobius details amino acids 878 to 896 (19 residues), see Phobius details amino acids 903 to 923 (21 residues), see Phobius details amino acids 929 to 952 (24 residues), see Phobius details amino acids 974 to 994 (21 residues), see Phobius details amino acids 1006 to 1031 (26 residues), see Phobius details PF00873: ACR_tran" amino acids 1 to 1032 (1032 residues), 1263.2 bits, see alignment E=0 TIGR00915: RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family" amino acids 1 to 1045 (1045 residues), 1616.2 bits, see alignment E=0 PF03176: MMPL" amino acids 339 to 495 (157 residues), 33.2 bits, see alignment E=4.2e-12

Best Hits

Swiss-Prot: 61% identical to ACRB_ECOLI: Multidrug efflux pump subunit AcrB (acrB) from Escherichia coli (strain K12)

MetaCyc: 61% identical to multidrug efflux pump RND permease AcrF (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-352; TRANS-RXN-354; TRANS-RXN-355; 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 (1059 amino acids)

>GFF3951 RND efflux system, inner membrane transporter (Sphingobium sp. HT1-2)
MARYFIDRPIFAWVIAIVIMLAGLLAIRSLPVAQFPEIAPPAVTIQTTYPGANAQTLEST
TTQIIEQQLKGIDNLRYFSSTSDGSGNLNITLTFEQGTDPDIAQVQVQNKLSQATPLLPQ
EVQQQGLRVGKSTSSFLLIMAAYSDDGIHDQEDAADFIASSLQDPLSRVTGVGDTQLFGS
QYAMRIWLDPYKMANLGVTTGDVKSAITAQNAQVSAGQIGGSPSPKGQALNATVTAQSRL
RTPEEFQNIRLRSNSDGSVVLMKDVAKVELGAETYGFGVKFNGHPASGFGIKLAPGANAL
DTVEAVKARVDQLSKNFPSWVKYDFPVDNSTFVKLSVEQVVHTLFEAVLLVFVVMFLFLQ
NWRATLIPTIAVPVVLLGALAILSAAGFTINTLTLFGMVLAIGLLVDDAIVVVENVERLI
QDEGLSPKEAAKKSMDEISGALIGIGLVLSAVFLPMAFFGGSTGVIFRQFSITIVSSMIL
SVLVALILTPALCATILKPASHGHSWNGPIGSILGRFFDWFNRTFDKGVVRYGKGVEKVE
RSWVRTMLVYGLVVVGMAFIFLRLPSGFLPDEDQGIIINQVSLPAGTTLEETERALARMR
DHYLVDEKKNVSAVFTVAGFGFVGQGQNVGIVFARMKDWHERSGADNRVPAIALRANMAF
QKISSGMAFAFVPPAVQELGNASGFDFQLLDQANLGHEKLLEARNQLLGMAMGDKRLAQV
RPNGLEDTPQLKLNVDQAAAGALGIAQSDVNDTISTNLGGSYVNDFIDRDRVKRVYVQAD
APFRTSADAINAYHVRGSTGVMAPLSAFSTTEWVQGPARLERYNGVPSMNIQGAPAPGVS
SGTAMQAMEEFAAKLPAGIGYAWNGISYEEQTSGGQAPYVYALSMLIVFLCLAALYESWS
VPIAVMLVVPLGVLGAVIAATLAGLNNDIYLQVGLITTIGVSAKNAILIVEFAEEKMREG
LPPAKAALEAGKLRLRPILMTSFAFIFGVLPLAVSKGAGAGGQNAIGWAVVGGMLSATVL
AIFFVPVFFTVVKRLFREHHEGEEQRNADGETPNAPQEA