Protein Info for GFF3580 in Xanthobacter sp. DMC5

Annotation: Exodeoxyribonuclease 7 large subunit

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 50 100 150 200 250 300 350 400 450 483 PF13742: tRNA_anti_2" amino acids 14 to 107 (94 residues), 89.9 bits, see alignment E=1.6e-29 TIGR00237: exodeoxyribonuclease VII, large subunit" amino acids 15 to 359 (345 residues), 372.4 bits, see alignment E=1.5e-115 PF01336: tRNA_anti-codon" amino acids 34 to 108 (75 residues), 39.8 bits, see alignment E=5.3e-14 PF02601: Exonuc_VII_L" amino acids 131 to 448 (318 residues), 342.7 bits, see alignment E=3.8e-106

Best Hits

Swiss-Prot: 60% identical to EX7L_PARL1: Exodeoxyribonuclease 7 large subunit (xseA) from Parvibaculum lavamentivorans (strain DS-1 / DSM 13023 / NCIMB 13966)

KEGG orthology group: K03601, exodeoxyribonuclease VII large subunit [EC: 3.1.11.6] (inferred from 81% identity to xau:Xaut_1413)

Predicted SEED Role

"Exodeoxyribonuclease VII large subunit (EC 3.1.11.6)" in subsystem DNA repair, bacterial (EC 3.1.11.6)

Isozymes

Compare fitness of predicted isozymes for: 3.1.11.6

Use Curated BLAST to search for 3.1.11.6

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 (483 amino acids)

>GFF3580 Exodeoxyribonuclease 7 large subunit (Xanthobacter sp. DMC5)
MTDDAEVRANAPEWSVSELSAALRRTVEDAYGHVRVRGEISGYRGPHSSGHAYFSLKDAG
ARLDAVIWKGTFQRLRLKPEEGLEVVATGKLTTYPGKSGYQLVIETLEFAGAGAIMAMLD
ERKRRLAAEGLFDPARKQELPFLPKVIGVVTSPTGAVIRDILHRLNDRFPRRVLVWPVRV
QGETSAAEVAAAIRGFNDLPEGGPIPRPDVIVVARGGGALEDLLGFSDEAVVRAAAESMI
PLVSAVGHETDVTLIDFAADVRAPTPTAAAEMVVPVRTDLIATVEDLGARLVAAPLRLLD
RRRADLRGLARLLPAAETLLAQPRQRLDLAAERLPRALRANASAHRLQLAAVQARLSPEA
LRTRLARAGERLEVLDGRMRRALEVQKERHTARLAALAQLLKALSYREVLGRGFALVRDA
GGHAVRRAADIADGAALSLEFADGRVAVQAGAGAPPPDSPPRPAPRPAGRKPRKVEGPTL
FDP