Protein Info for GFF5505 in Hydrogenophaga sp. GW460-11-11-14-LB1

Annotation: TRAP-type transport system, periplasmic component, predicted N-acetylneuraminate-binding 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 50 100 150 200 250 300 340 signal peptide" amino acids 1 to 27 (27 residues), see Phobius details TIGR00787: TRAP transporter solute receptor, DctP family" amino acids 36 to 289 (254 residues), 275 bits, see alignment E=3.1e-86 PF03480: DctP" amino acids 36 to 311 (276 residues), 302.3 bits, see alignment E=1.7e-94

Best Hits

Swiss-Prot: 34% identical to YIAO_ECOLI: 2,3-diketo-L-gulonate-binding periplasmic protein YiaO (yiaO) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 76% identity to pna:Pnap_0043)

MetaCyc: 34% identical to 2,3-diketo-L-gulonate:Na+ symporter - periplasmic binding protein (Escherichia coli K-12 substr. MG1655)
TRANS-RXN0-235

Predicted SEED Role

"TRAP-type transport system, periplasmic component, predicted N-acetylneuraminate-binding protein" in subsystem Sialic Acid Metabolism

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search 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 (340 amino acids)

>GFF5505 TRAP-type transport system, periplasmic component, predicted N-acetylneuraminate-binding protein (Hydrogenophaga sp. GW460-11-11-14-LB1)
MTLFRRTLIAATAAAALATPFAASWAQDIKPRIIRFGYGLNEISNQGRATKLFAEEVEKA
SGGKMKIRAIGAAALGSDVQMQQALIGGAQEMMVGSTATLVGITKEMAIWDTPFLFDNAK
EADVVLDGPVGQKVMDKLQEKGLVGLVYWENGFRNLTNNKRAVTKLEDMDGIKLRVMQNN
VFIDSFKTLGANAVPLPFSELFTALETKTVDGQENPYNTILSSKFYEVQKYLTVTNHVYS
PWIVLVSKKYWDGLSKDEHKVLLDAAKKSRDFERQDTRAEADKALADLKGKGMQINQLSP
AEANRMREKLAGVNSGIATNVGEDLWKETQAAVAKARAAK