Protein Info for GFF3520 in Sphingobium sp. HT1-2

Annotation: General secretion pathway protein C

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 50 100 150 200 250 286 transmembrane" amino acids 21 to 48 (28 residues), see Phobius details PF11356: T2SSC" amino acids 28 to 156 (129 residues), 78.7 bits, see alignment E=6.1e-26 PF13180: PDZ_2" amino acids 204 to 281 (78 residues), 35 bits, see alignment E=2.1e-12 PF17820: PDZ_6" amino acids 229 to 272 (44 residues), 30.9 bits, see alignment 2.7e-11

Best Hits

KEGG orthology group: K02452, general secretion pathway protein C (inferred from 65% identity to sjp:SJA_C1-23570)

Predicted SEED Role

"General secretion pathway protein C"

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 (286 amino acids)

>GFF3520 General secretion pathway protein C (Sphingobium sp. HT1-2)
MRVPFGDKLQGWRRYARPVDWLGLVEKLLLAVLALQLARLVWVLLTPVGAFGPWEGRQAQ
LLSASARQALFASFDPFFRTGAPQAGNGVVTSLALTLYGVRLNEGTGQGSAILATPDGIQ
NSYAVGDEIMPGVVLKAVLFDHVTIDRGGAEEQVFLDQSQPESAAGGPAGGPGGAPEGDM
APGEGAPSPVPGRDAPSADAVKRDIGFSPRTQNGRVTGLVMSPKGPGFQNAGFQAGDIVT
QINGQPIGSAGDLASLQNQIVPGARLSLTVERGAVTVPINLILQGQ