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Structure paper

TitleAnalysis of diverse double-strand break synapsis with Pol lambda reveals basis for unique substrate specificity in nonhomologous end-joining.
Journal, issue, pagesNat Commun, Vol. 13, Page 3806-3806, Year 2022
Publish dateMar 10, 2021 (structure data deposition date)
AuthorsKaminski, A.M. / Chiruvella, K.K. / Ramsden, D.A. / Bebenek, K. / Kunkel, T.A. / Pedersen, L.C.
External linksNat Commun / PubMed:35778389
MethodsX-ray diffraction
Resolution1.57 - 2.25 Å
Structure data

PDB-7m07:
Pre-catalytic ternary complex of DNA Polymerase Lambda with bound 1-nt gapped SSB substrate and incoming dUMPNPP
Method: X-RAY DIFFRACTION / Resolution: 1.57 Å

PDB-7m09:
Pre-catalytic quaternary complex of DNA Polymerase Lambda with blunt-ended DSB substrate and incoming dUMPNPP
Method: X-RAY DIFFRACTION / Resolution: 1.65 Å

PDB-7m0a:
Incomplete in crystallo incorporation by DNA Polymerase Lambda bound to blunt-ended DSB substrate and incoming dTTP
Method: X-RAY DIFFRACTION / Resolution: 1.83 Å

PDB-7m0b:
Pre-catalytic quaternary complex of DNA Polymerase Lambda with bound mismatched DSB and incoming dUMPNPP
Method: X-RAY DIFFRACTION / Resolution: 2 Å

PDB-7m0d:
Pre-catalytic quaternary complex of DNA Polymerase Lambda with bound complementary DSB substrate and incoming dUMPNPP
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-7m0e:
Pre-catalytic synaptic complex of DNA Polymerase Lambda with gapped DSB substrate and incoming dUMPNPP
Method: X-RAY DIFFRACTION / Resolution: 2.25 Å

Chemicals

ChemComp-DUP:
2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE

ChemComp-MG:
Unknown entry

ChemComp-NA:
Unknown entry

ChemComp-CL:
Unknown entry

ChemComp-EDO:
1,2-ETHANEDIOL

ChemComp-HOH:
WATER

ChemComp-CA:
Unknown entry

ChemComp-GOL:
GLYCEROL

ChemComp-TTP:
THYMIDINE-5'-TRIPHOSPHATE

ChemComp-PPV:
PYROPHOSPHATE

ChemComp-SO4:
SULFATE ION

ChemComp-K:
Unknown entry

ChemComp-TRS:
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL / pH buffer*YM

ChemComp-CIT:
CITRIC ACID

ChemComp-FMT:
FORMIC ACID

Source
  • homo sapiens (human)
  • synthetic construct (others)
KeywordsTRANSFERASE / Nonhomologous end-joining / Base Excision Repair

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