Protein Info for PP_1209 in Pseudomonas putida KT2440

Annotation: cold-shock 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 50 100 150 197 signal peptide" amino acids 1 to 27 (27 residues), see Phobius details transmembrane" amino acids 36 to 55 (20 residues), see Phobius details amino acids 66 to 84 (19 residues), see Phobius details amino acids 90 to 110 (21 residues), see Phobius details PF00313: CSD" amino acids 131 to 193 (63 residues), 87.3 bits, see alignment E=2.4e-29

Best Hits

KEGG orthology group: K03704, cold shock protein (beta-ribbon, CspA family) (inferred from 98% identity to ppf:Pput_1238)

Predicted SEED Role

"Cold shock protein CspC"

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

See Q88NJ8 at UniProt or InterPro

Protein Sequence (197 amino acids)

>PP_1209 cold-shock protein (Pseudomonas putida KT2440)
MFKIVHLVTGVAALLLSLIPSLKTDATPFLQQPDAVYLALLGLLNLVLAPVVPLYHRGAR
QQLQHLACALLVVAVVLQTLTLLARPEMGNLAALVCAALAVAVHLAVGFARSTRKARGTQ
HVAQDAGNRDTGTVKWFNTSKGFGFISRDSGDDIFVHFRAIRGEGHRILVEGQRVEFSVM
HRDKGLQAEDVVAVNRR