Protein Info for Atu4632 in Agrobacterium fabrum C58

Annotation: 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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 771 TIGR02777: DNA ligase D, 3'-phosphoesterase domain" amino acids 3 to 158 (156 residues), 249.9 bits, see alignment E=1.6e-78 PF13298: LigD_N" amino acids 33 to 138 (106 residues), 154.1 bits, see alignment E=2.6e-49 TIGR02779: DNA ligase D, ligase domain" amino acids 230 to 530 (301 residues), 363.8 bits, see alignment E=1.4e-112 TIGR02776: DNA ligase D" amino acids 239 to 768 (530 residues), 613.8 bits, see alignment E=8.3e-188 PF01068: DNA_ligase_A_M" amino acids 242 to 411 (170 residues), 83.5 bits, see alignment E=3.3e-27 PF04679: DNA_ligase_A_C" amino acids 430 to 524 (95 residues), 97.4 bits, see alignment E=1.1e-31 TIGR02778: DNA ligase D, polymerase domain" amino acids 548 to 768 (221 residues), 263.6 bits, see alignment E=3.9e-82 PF21686: LigD_Prim-Pol" amino acids 564 to 768 (205 residues), 236.7 bits, see alignment E=6.4e-74

Best Hits

KEGG orthology group: K01971, DNA ligase (ATP) [EC: 6.5.1.1] (inferred from 100% identity to atu:Atu4632)

Predicted SEED Role

"ATP-dependent DNA ligase (EC 6.5.1.1) clustered with Ku protein, LigD" 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 A9CGX3 at UniProt or InterPro

Protein Sequence (771 amino acids)

>Atu4632 ATP-dependent DNA ligase (Agrobacterium fabrum C58)
MGLQTYNAKRSFDKTPEPKGTKAEKPGSSFVIQKHDARRLHYDFRLEMDGVLKSWAVTRG
PSLDPEDKRLAVHVEDHPLSYGDFEGVIPKGQYGGGTVIVWDRGIWQPIGDAGKGYRKGH
LEFELEGEKLKGRWHLVRMHGKPGESRENWLLIKGDDEEARHKGGADILEERPESVKTGR
SVEEVAKKPEDTWNSKPVSKKAGASTSGQKQAHALPKGARKQALPSFVPPALATLKPKPP
EGSRWLHEIKFDGYRLQARVDQGKLQLLTRSGLDWTEKFGAAVAAALTALPAETVLIDGE
IVVERDSGASDFSALQQDLSEGRDDRFVFYAFDLLYLDGSDLRGAALSERKALLEKLLPA
GDPHLRYSQHFEESGALVLDHACRLSLEGVISKVKSSKYVSGRKGEWVKSKCSMRQEFVI
GGYTVSSTSEHAIGSLALGVYENGKLRHVGRVGTGYSGDVAEMIFSRLKPLERKDSPFGD
KLTALARRDLHFVKPELVAEVEFRAWSGDGNLRHASFRGLREDKPAGEIEREEKAVSDSN
APQSQSKIKFTHPDRLYWPNDGVTKEGLADYYAQVWRHMAPFVVNRPLALLRCPEGIEGQ
RFFQKHAWRGINKAIEQIKDPKDKGGEPLIRITDFDGLMALVQSAALEIHPWGATTANWE
KPDMITMDIDPGEDVAWDAVIEAAQELKRRFEEAGLAAFVKTSGGKGLHVVSPLKPQAGW
APVKAFAKAMATDMSKAEPEKYLSVATKAKRQGRIFIDYLRNGRGNTAKRK