DNA ligase
From Proteopedia
DNA ligase (LigD) is an enzyme which repairs single-stranded breaks in a double-stranded DNA. LigD is activated , in a species-dependent manner, by hydrolysis of ATP or NAD+. Mamlian LigD I ligates the nascent DNA of the lagging strand; LigD III complexes with XRCC1 in the process of nucleotide excision repair; LigD IV complexes with XRCC4 and catalyzes the last step in the non-homologous DNA end joining.
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3D Structures of DNA ligase
Update June 2011
ATP-dependent LigD
3p4h – LigD N-terminal – Candidatus korarchaeum cryptofilum
3gde – LigD – Archaeoglobus fulgidus
2hiv – SsLigD – Sulfolobus solfataricus
2hix - SsLigD + ATP
2cfm - LigD + AMP – Pyrococcus furiosus
2fao - PaLigD polymerase domain – Pseudomonas aeruginosa
2faq, 2far - PaLigD polymerase domain + ATP + Mn
1a0i – LigD + ATP – Bacteriophage T7
NAD+-dependent LigD
3jsl, 3jsn - LigD adenylation domain – Staphylococcus aureus
3ba8, 3ba9, 3baa, 3bab, 3bac - EfLigD adenylation domain + inhibitor – Enterococcus faecalis
1ta8, 1tae - EfLigD adenylation domain
1zau - LigD adenylation domain – Mycobacterium tuberculosis
1v9p, 1dgs – LigD – Thermus filiformis
1b04 – LigD adenylation domain (mutant) – Geobacillus stearothermophilus
LigD
2q2t – CvLigD + DNA + AMP + CMP – Chlorella virus
2q2u, 1p8l, 1fvi - CvLigD + DNA + mononucleotide
2owo – LigD + DNA + AMP + CMP – Escherichia coli
3qwu – LigD – Aquifex aeolicus
3pn1 – LigD adenylation domain + inhibitor – Haemophilus influenzae
1l7b – LigD BRCT domain – Thermus thermophilus - NMR
Mammalian LigD I
1x9n – hLigD I + DNA + AMP + CMP – human
2od8 – LigD I residues 32-53 + PCNA
Mammalian LigD III
3l2p – hLigD III residues 257-833 + DNA
1uw0 - hLigD III zinc-finger domain residues 1-117 – NMR
1imo, 1in1 - hLigD III BRCTdomain – NMR
Mammalian LigD VI
3ii6, 1ik9 – hLigD IV C-terminal BRCT domains + DNA repair protein XRCC4
2e2w - hLigD IV BRCT domain - NMR
1z56 – LigD IV + ligase interacting factor 1 - yeast
