Protein Info for Psyr_0028 in Pseudomonas syringae pv. syringae B728a

Annotation: Substrate-binding region of ABC-type glycine betaine transport system

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 50 100 150 200 250 308 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details TIGR03414: choline ABC transporter, periplasmic binding protein" amino acids 21 to 308 (288 residues), 447.7 bits, see alignment E=8.6e-139 PF04069: OpuAC" amino acids 29 to 279 (251 residues), 200.7 bits, see alignment E=1.7e-63

Best Hits

KEGG orthology group: K02002, glycine betaine/proline transport system substrate-binding protein (inferred from 100% identity to psb:Psyr_0028)

Predicted SEED Role

"L-proline glycine betaine binding ABC transporter protein ProX (TC 3.A.1.12.1)" in subsystem Choline and Betaine Uptake and Betaine Biosynthesis (TC 3.A.1.12.1)

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

See Q500S0 at UniProt or InterPro

Protein Sequence (308 amino acids)

>Psyr_0028 Substrate-binding region of ABC-type glycine betaine transport system (Pseudomonas syringae pv. syringae B728a)
MKKLSTAVAVAVMTLGSLAAQAEDASCSTVKMADPGWSDIAATNAITSVVLEGLGYTPKV
DTLAVPIAYGGLKDGKLDVFLGNWMPAQQGFYDKFVATGDVTQLAKNLEGTEFTLAVPDY
VWDAGVHDFADLSKFADKFDKKIYGIGSGAPANLSLQEIIKKNEFDLGKWKLVESSETAM
LAEVNRNVKKKAFVVFLGWTPHPMNVQIKGMHYLKGGEKYFGDTGSVFTLTRKGYAQACP
NVGKLLTNLSFTLDMENSIMAEVVNKKVSNSEAAKSWIKANPTVLDKWLEGVKTVDGKDG
LAAVKAKL