Protein Info for GFF7043 in Variovorax sp. SCN45

Annotation: Putative transmembrane protein

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 50 100 150 200 227 transmembrane" amino acids 33 to 52 (20 residues), see Phobius details amino acids 176 to 200 (25 residues), see Phobius details amino acids 207 to 226 (20 residues), see Phobius details PF03929: PepSY_TM" amino acids 19 to 199 (181 residues), 33.6 bits, see alignment E=4e-12 PF16357: PepSY_TM_like_2" amino acids 26 to 224 (199 residues), 51.6 bits, see alignment E=1.3e-17

Best Hits

KEGG orthology group: K09939, hypothetical protein (inferred from 88% identity to vpe:Varpa_4209)

Predicted SEED Role

"Probable transmembrane protein"

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 (227 amino acids)

>GFF7043 Putative transmembrane protein (Variovorax sp. SCN45)
MDHDSTTLGHAARVRSHQRRTAAVQWIRRTHGWIGLWGAVLGLLFGFSGIWLNHRNVLKL
PQAQERTRAQLALPEPAPETPEAMSRWLQEALRMSGPPNSTRIEPAKPVAWADKSDKSAP
ALMQPAHWVFNFGGPNEMVQAEYWQGNRSVGVATTHNGFVATLTNMHKGGGMPVPWILLV
DTLAGSLIFLSMSGVALWMLTHRRRRVGLAVFGASLVAVLALALSAL