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DNA ligase 3D structures

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(New page: == 3D Structures of DNA ligase == Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}} {{#tree:id=OrganizedByTopic|openlevels=0| *ATP-dependent LigD **[[3p4h]...)
Current revision (09:58, 31 January 2023) (edit) (undo)
 
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Line 17: Line 17:
**[[4d05]] – LigD + AMP - ''Psychromonas'' <br />
**[[4d05]] – LigD + AMP - ''Psychromonas'' <br />
**[[6nhx]], [[6nhz]] – MtLigD D + ATP - ''Mycobacterium tuberculosis'' <br />
**[[6nhx]], [[6nhz]] – MtLigD D + ATP - ''Mycobacterium tuberculosis'' <br />
 +
**[[2iru]] – MtLigD D polymerase domain 1-300 <br />
 +
**[[2irx]], [[2iry]] – MtLigD D polymerase domain + GTP <br />
 +
**[[3pky]] – MtLigD D polymerase domain + DNA + UTP <br />
 +
**[[2r9l]], [[4mky]] – MtLigD D polymerase domain + DNA <br />
 +
**[[6rar]], [[6ras]], [[6rce]] - PmLigD + CMP + AMP – ''Prochlorococcus marinus''<br />
 +
**[[6rau]] - PmLigD + AMP <br />
 +
**[[7obn]] - LigD + AMP + CMP + DNA – ''Burkholderia pseudomallei<''br />
*NAD+-dependent LigD
*NAD+-dependent LigD
Line 25: Line 32:
**[[1ta8]], [[1tae]] - EfLigD adenylation domain<br />
**[[1ta8]], [[1tae]] - EfLigD adenylation domain<br />
**[[1zau]] - MtLigD adenylation domain <br />
**[[1zau]] - MtLigD adenylation domain <br />
-
**[[3sgi]] – MtLigD (mutant) + AMP<br />
+
**[[3sgi]], [[6ksc]] – MtLigD A (mutant) + AMP<br />
 +
**[[7k72]] – MtLigD A + AMP + NAD<br />
 +
**[[6kjm]], [[6krh]] – MtLigD A + AMP + nicotinamide ribose-MP<br />
 +
**[[6kkv]], [[6lw8]]– MtLigD A + inhibitor<br />
 +
**[[6ksd]] - MtLigD (mutant) + nicotinamide mononucleotide<br />
 +
**[[6kdu]] - MtLigD (mutant) + AMP + nicotinamide mononucleotide<br />
**[[1v9p]], [[1dgs]] – LigD – ''Thermos filiformis''<br />
**[[1v9p]], [[1dgs]] – LigD – ''Thermos filiformis''<br />
**[[1b04]] – LigD adenylation domain (mutant) – ''Geobacillus stearothermophilus''<br />
**[[1b04]] – LigD adenylation domain (mutant) – ''Geobacillus stearothermophilus''<br />
Line 46: Line 58:
**[[1l7b]] – LigD BRCT domain – ''Thermos thermophilus'' - NMR<br />
**[[1l7b]] – LigD BRCT domain – ''Thermos thermophilus'' - NMR<br />
**[[3rr5]] – LigD - ''Thermococcus''<br />
**[[3rr5]] – LigD - ''Thermococcus''<br />
 +
**[[6wbo]] - LigD + AMP – ''Thermococcus gammatolerans''<br />
**[[5frq]] - LigD + DNA polymerase III subunit β – ''Helicobacter pylori''<br />
**[[5frq]] - LigD + DNA polymerase III subunit β – ''Helicobacter pylori''<br />
Line 51: Line 64:
**[[1x9n]] – hLigD I + DNA + AMP + CMP – human<br />
**[[1x9n]] – hLigD I + DNA + AMP + CMP – human<br />
 +
**[[8b8t]] - hLigD I + PCNA – Cryo EM<br />
 +
**[[7qnz]] - hLigD I + PCNA + DNA – Cryo EM<br />
 +
**[[7qo1]] - hLigD I + PCNA + FEN1 + DNA – Cryo EM<br />
 +
**[[6p09]], [[6p0a]], [[6p0b]], [[6p0c]], [[6p0d]], [[7kr3]], [[7kr4]], [[7sx5]], [[7sxe]], [[7sum]] - hLigD I + DNA + AMP<br />
 +
**[[6p0e]], [[6q1v]], [[7l34]], [[7l35]] - hLigD I (mutant) + DNA + AMP<br />
**[[2od8]] – LigD I residues 32-53 + PCNA
**[[2od8]] – LigD I residues 32-53 + PCNA
Line 57: Line 75:
**[[3l2p]] – hLigD III residues 257-833 + DNA<br />
**[[3l2p]] – hLigD III residues 257-833 + DNA<br />
**[[1uw0]] - hLigD III zinc-finger domain residues 1-117 – NMR<br />
**[[1uw0]] - hLigD III zinc-finger domain residues 1-117 – NMR<br />
-
**[[1imo]], [[1in1]] - hLigD III BRCTdomain – NMR<br />
+
**[[1imo]], [[1in1]] - hLigD III BRCT domain – NMR<br />
-
**[[3pc7]] - hLigD III BRCTdomain<br />
+
**[[3pc7]] - hLigD III BRCT domain 932-1009<br />
-
**[[3pc8]] - hLigD III BRCTdomain (mutant) + XRCC1<br />
+
**[[3qvg]] - hLigD III BRCT domain + XRCC1<br />
-
**[[3qvg]] - hLigD III BRCTdomain + XRCC1
+
**[[3pc8]] - hLigD III BRCT domain (mutant) + XRCC1<br />
-
*Mammalian LigD IV
+
*Mammalian LigD IV; Domains - catalytic 1-609; DNA-binding 1-240; adenylation 268-405; BRCT 654-911
-
**[[3ii6]], [[ 1ik9]] – hLigD IV C-terminal BRCT domains + DNA repair protein XRCC4<br />
+
**[[3w5o]] - hLigD IV catalytic domain <br />
-
**[[3w5o]] - hLigD IV <br />
+
**[[3ii6]], [[1ik9]] – hLigD IV C-terminal BRCT domains + DNA repair protein XRCC4<br />
-
**[[2e2w]] - hLigD IV BRCT domain - NMR<br />
+
**[[2e2w]] - hLigD IV BRCT domain 654-759 - NMR<br />
-
**[[3vnn]] - hLigD IV adenylation domain<br />
+
**[[3vnn]] - hLigD IV adenylation domain <br />
-
**[[4hto]] - hLigD IV DNA-binding domain<br />
+
**[[4hto]], [[7d9k]] - hLigD IV DNA-binding domain <br />
 +
**[[7d9y]] - hLigD IV DNA-binding domain (mutant)<br />
**[[4htp]] - hLigD IV DNA-binding domain + artemis protein peptide<br />
**[[4htp]] - hLigD IV DNA-binding domain + artemis protein peptide<br />
**[[3w1b]], [[3w1g]] - hLigD IV adenylation and DNA-binding domains + artemis protein peptide<br />
**[[3w1b]], [[3w1g]] - hLigD IV adenylation and DNA-binding domains + artemis protein peptide<br />
-
**[[6bkg]], [[6bkf]] - hLigD IV + DNA<br />
+
**[[6bkg]], [[6bkf]] - hLigD IV catalytic domain + DNA + AMP<br />
 +
**[[7lsy]], [[7lt3]], [[7nfc]], [[7nfe]] - hLigD IV in NHEJ short-range synaptic complex – Cryo EM<br />
**[[1z56]] – LigD IV + ligase interacting factor 1 - yeast<br />
**[[1z56]] – LigD IV + ligase interacting factor 1 - yeast<br />

Current revision

3D Structures of DNA ligase

Updated on 31-January-2023

Proteopedia Page Contributors and Editors (what is this?)

Michal Harel

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