Protein Info for Atu2082 in Agrobacterium fabrum C58

Annotation: 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 50 100 150 200 250 300 350 400 450 500 550 600 650 724 TIGR00575: DNA ligase, NAD-dependent" amino acids 23 to 718 (696 residues), 735 bits, see alignment E=3.8e-225 PF01653: DNA_ligase_aden" amino acids 81 to 335 (255 residues), 299.9 bits, see alignment E=4.1e-93 PF03120: DNA_ligase_OB" amino acids 339 to 426 (88 residues), 104.6 bits, see alignment E=5e-34 PF03119: DNA_ligase_ZBD" amino acids 436 to 469 (34 residues), 26.2 bits, see alignment (E = 1.5e-09) PF12826: HHH_2" amino acids 556 to 629 (74 residues), 60 bits, see alignment E=5e-20 PF00533: BRCT" amino acids 650 to 722 (73 residues), 51.6 bits, see alignment E=2.3e-17

Best Hits

Swiss-Prot: 100% identical to DNLJ_AGRFC: DNA ligase (ligA) from Agrobacterium fabrum (strain C58 / ATCC 33970)

KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 100% identity to atu:Atu2082)

Predicted SEED Role

"DNA ligase (EC 6.5.1.2)" in subsystem DNA Repair Base Excision (EC 6.5.1.2)

MetaCyc Pathways

Isozymes

No predicted isozymes

Use Curated BLAST to search for 6.5.1.2

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

See A9CIB3 at UniProt or InterPro

Protein Sequence (724 amino acids)

>Atu2082 DNA ligase (Agrobacterium fabrum C58)
MSKDQIPVENLTELEASSELAFLAAELARHDALYHGKDAPEISDADYDALKRRNDAIEAA
FPALVRADSPSKKVGFTPLPTFAPIVHARPMLSLDNTFSEEDLRDFVSSVYRFLGHLPDD
SIAFTAEPKIDGLSMSIRYENRKLKTAATRGDGTTGENVTANIRTIKEIPNELPADAPDV
VEVRGEVYMAKSDFLALNAQMEADGKQTYVNPRNTASGSLRQLDANVTAKRKLRFFAYAL
GEVSNGGQPARIADTQYGIVEKFREWGFPVNPLMKRFTSAQQLLEHYNEIGVARPDLDYD
IDGVVYKVDRLDLQERLGFRSRSPRWATAHKFPAEQAFTTVENIEIQVGRTGALTPVARL
TPITVGGVVVTNATLHNADYIEGIGNSGERIRPEDHDIRIGDTVIVQRAGDVIPQVLDVL
LEKRAAGAAKYVFPEKCPVCGSHAVRERNEKTGKLDSVTRCTGGFVCRAQAVEHLKHFVS
RNAFDIEGLGTKQIDFFFESDDPALSIKTAPDIFTLKARQEASHLTKLENIDGFGKVSVK
KLFDAIDARRAIDLHRLIFALGIRHVGETTAKLLARSYGTYEHFEKAMKAAADPASDAWA
ELNSIDGIGEVVARAIIEFYKEPRNLDVIDRLIRELQPKEAEKPSTEGSPVAGKTVVFTG
SLEKFTRDEAKARAESLGAKVAGSVSKKTDILVAGPGAGSKLAKATELGVQTMDEDEWLA
LIGG