Protein Info for GFF8 in Variovorax sp. SCN45

Annotation: RND efflux system, outer membrane lipoprotein, NodT family

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 50 100 150 200 250 300 350 400 450 504 signal peptide" amino acids 1 to 25 (25 residues), see Phobius details TIGR01845: efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family" amino acids 15 to 478 (464 residues), 404.1 bits, see alignment E=4.1e-125 PF02321: OEP" amino acids 76 to 267 (192 residues), 54.8 bits, see alignment E=5.5e-19 amino acids 292 to 476 (185 residues), 88.8 bits, see alignment E=2.1e-29

Best Hits

KEGG orthology group: None (inferred from 53% identity to rme:Rmet_5328)

Predicted SEED Role

"RND efflux system, outer membrane lipoprotein, NodT family" in subsystem Multidrug Resistance Efflux Pumps

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 (504 amino acids)

>GFF8 RND efflux system, outer membrane lipoprotein, NodT family (Variovorax sp. SCN45)
MIKKTSLATPVAAGIALLLGGCAAGPDYVRPPLNLPTQYTSAPASSTEAEGVPLPRFSPD
LDVPAQWWQAFRSEPLNALVVQSLAGNPTIEAADAALRVAQENEAADRAAFWPTVALGYS
PTRQRVAGAVASPVSSNANLYTLHTAQVTVSYTPDVFGATRRQVEGAQAQTEQQRFQTLA
AKLSLSSNVVAAAITEASLRAQQRATQAIIADQKEVLQAYRKQLGLGQVAVADVDAQEAS
LAATEATLPPLDKQLAQQRNLLATLAGRYPSEGVAAHFELDALQLPGELPRTLPSTLVEH
RPDVRAAEAQLQAASAAIGVAVAARLPNVTLGASYGSSAYTLSQLFKSSSLFWSLAGNVT
QTVFDGGALKHREAAARASFDQAGAQYRATVLSAFQDVANALEAIDADTRALQAAVKAER
TASQSLARTRTQVRLGDASPLALRIAQQAEQQALLNLVQARALRLTDAAALFQALGGGWW
NAPPAQLADSSSPVSPNASKPALP