Protein Info for GFF599 in Hydrogenophaga sp. GW460-11-11-14-LB1

Annotation: Signal recognition particle, subunit Ffh SRP54 (TC 3.A.5.1.1)

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 50 100 150 200 250 300 350 400 456 TIGR00959: signal recognition particle protein" amino acids 4 to 430 (427 residues), 559.6 bits, see alignment E=2.3e-172 PF02881: SRP54_N" amino acids 5 to 82 (78 residues), 69.2 bits, see alignment E=8.7e-23 PF06414: Zeta_toxin" amino acids 95 to 188 (94 residues), 33.2 bits, see alignment E=1.1e-11 PF00448: SRP54" amino acids 100 to 295 (196 residues), 236.5 bits, see alignment E=6.5e-74 PF02978: SRP_SPB" amino acids 329 to 428 (100 residues), 113.5 bits, see alignment E=1.5e-36

Best Hits

Swiss-Prot: 47% identical to SRP54_SYNY3: Signal recognition particle protein (ffh) from Synechocystis sp. (strain PCC 6803 / Kazusa)

KEGG orthology group: K03106, signal recognition particle subunit SRP54 (inferred from 88% identity to rfr:Rfer_3342)

Predicted SEED Role

"Signal recognition particle, subunit Ffh SRP54 (TC 3.A.5.1.1)" in subsystem Two cell division clusters relating to chromosome partitioning or Universal GTPases (TC 3.A.5.1.1)

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

Find the best match in UniProt

Protein Sequence (456 amino acids)

>GFF599 Signal recognition particle, subunit Ffh SRP54 (TC 3.A.5.1.1) (Hydrogenophaga sp. GW460-11-11-14-LB1)
MASALSDRLSRIVKEMRGQARITEGNVTDMLREVRMALLEADVALPVVRDFIARVKDKAL
GQEVVGSLTPGQALVGIVHRELAATMGDGVADINLAAQPPAVILMAGLQGAGKTTTTAKL
AKHLIEKRKKKVLTVSGDVYRPAAIEQLKTVTAQAGAEWFPSTPDQKPVDIARAAIDHAR
KHYFDVLLVDTAGRLAIDEALMREIQELHAVLKPVETLFVVDAMQGQDAINTARAFKDAL
PLTGIVLTKLDGDSRGGAALSVRQVTGAPIKFAGVSEKIDGLEVFDADRHAQRVLGMGDI
LALVEQVTAGVDIAAAQKLAAKVKSGEGFDLNDFLDQLRQMKQMGGLSSLMDKLPAAMAA
KAGEVDMGRAEKDIKRKEGIICSMTLKERRKPEIIKATRKRRIAAGAGVHVQEVNRLLKE
FEQMQDMMKKMKGGGMMKMMKRLGGMKGMPKLPGMG