Protein Info for GFF2416 in Sphingobium sp. HT1-2

Annotation: Site-specific tyrosine recombinase XerD

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 50 100 150 200 250 309 PF02899: Phage_int_SAM_1" amino acids 8 to 84 (77 residues), 44.4 bits, see alignment E=1.6e-15 PF00589: Phage_integrase" amino acids 108 to 277 (170 residues), 132.1 bits, see alignment E=1.8e-42

Best Hits

Swiss-Prot: 62% identical to XERC_ERYLH: Tyrosine recombinase XerC (xerC) from Erythrobacter litoralis (strain HTCC2594)

KEGG orthology group: K04763, integrase/recombinase XerD (inferred from 86% identity to sjp:SJA_C1-24000)

Predicted SEED Role

"Tyrosine recombinase XerD"

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 (309 amino acids)

>GFF2416 Site-specific tyrosine recombinase XerD (Sphingobium sp. HT1-2)
MDDDAVLIDRFLEMMAAERGASRNTLLAYRTDLQGAGEIVGGLAVASQDTLGRLAGEWAP
LAASTVARKASALRAFYAFLEEEGLRADNPGAALPRPVTRRPLPKILSSQEVDSLFALIA
QRVETAHPAPLDLRLSALIELLYGSGLRATELVSLPRKALAVDRPFLIIRGKGARERLVP
ISDRARAAVATWLAHVPADSLWLFPSGKSHVSRIRLYQLVKQLAAAAGIAPERVSPHVLR
HAFATHLLEGGADLRALQSMLGHADIGTTQIYTHVDSRRLVELVNSRHPLAGMQARIAHP
RVDGDASAP