Protein Info for Psyr_3873 in Pseudomonas syringae pv. syringae B728a

Annotation: ATP-dependent DNA ligase:ATP-dependent DNA ligase

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 50 100 150 200 250 300 350 400 450 500 567 TIGR04120: DNA ligase, ATP-dependent, PP_1105 family" amino acids 2 to 566 (565 residues), 744.2 bits, see alignment E=5e-228 PF04675: DNA_ligase_A_N" amino acids 2 to 161 (160 residues), 45.6 bits, see alignment E=1.4e-15 PF01068: DNA_ligase_A_M" amino acids 214 to 435 (222 residues), 80.1 bits, see alignment E=2.9e-26 PF04679: DNA_ligase_A_C" amino acids 456 to 551 (96 residues), 34 bits, see alignment E=4.7e-12

Best Hits

KEGG orthology group: K01971, DNA ligase (ATP) [EC: 6.5.1.1] (inferred from 100% identity to psb:Psyr_3873)

Predicted SEED Role

"ATP-dependent DNA ligase (EC 6.5.1.1) LigC" in subsystem DNA Repair Base Excision (EC 6.5.1.1)

Isozymes

Compare fitness of predicted isozymes for: 6.5.1.1

Use Curated BLAST to search for 6.5.1.1

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

See Q4ZPL9 at UniProt or InterPro

Protein Sequence (567 amino acids)

>Psyr_3873 ATP-dependent DNA ligase:ATP-dependent DNA ligase (Pseudomonas syringae pv. syringae B728a)
MKAFAELYAQLDATTSSNAKLAAMRDYFEKAAAEDAAWAVYFLSGGRPRQLVPTRVLREQ
AMTLASLPEWLFEESYQAVGDLAETLSLLLPQADHSNDEGLATWMEDKLLPLRGLPPEEL
AERLPMFWSQLDRSSLMVCIKLITGSFRVGVSKLLVTRALAALADIDSKRVAQRLVGYTD
LSHRPSAERYLKLIAPESEDEHAQRGGQPYPFFLAHSLQQPADQFEALLGPAQNWQVEWK
WDGIRAQLVKRDGRLWIWSRGEELVTDRFPELHSLVQCLPDGTVIDGEIVVWKAPDANPD
ADAEFALNSDAPAAAPSVQPFALLQQRIGRKTLGKKILADVPVVVLAYDLLEWQGDDWRS
RPQHERRSQLEALIETCQSEVLMPSPVLSGKDWLDLATQREASRSLGVEGMMLKARDSLY
GVGRTKDMGVWWKWKIDPFSVDAVLIYAQRGHGRRASLYSDYTFAVWDGPPEASERTLVP
FAKAYSGLTDEEMRKVDAIVRKTTVEKFGPVSSVTPTLVFELGFEGIALSKRHKSGIAVR
FPRMLRWRQDKPVAEADSLATLQDLLN