SMTL ID : 2riq.1

Crystal Structure of the Third Zinc-binding domain of human PARP-1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.81, C.84, C.97, C.107 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.81, A:C.84, A:C.97, A:C.107 ZN.6: 4 residues within 4Å: Chain B: C.81, C.84, C.97, C.107 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.81, B:C.84, B:C.97, B:C.107

2 x EOH: ETHANOL(Non-functional Binders)

EOH.2: 8 residues within 4Å: Chain A: L.38, C.42, L.50, T.121, F.125, I.128 Chain B: Y.130, L.134 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:L.134, A:L.38, A:L.50, A:T.121 EOH.7: 8 residues within 4Å: Chain A: Y.130, L.134 Chain B: L.38, C.42, L.50, T.121, F.125, I.128 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.38, B:L.50, B:T.121, A:L.134

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: K.132, K.133, V.136 Chain B: L.30, N.33, I.34, E.37 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.132 Water bridges: B:N.33 GOL.4: 7 residues within 4Å: Chain A: C.81, E.82, L.88, V.109, T.111, P.114, N.115 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.82, A:N.115, A:N.115 GOL.5: 4 residues within 4Å: Chain A: W.32, K.35, D.36, K.39 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:W.32, A:D.36, A:D.36, A:K.39 Water bridges: A:K.35, A:K.35, A:S.63 GOL.8: 7 residues within 4Å: Chain A: L.30, N.33, I.34, E.37 Chain B: K.132, K.133, V.136 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:K.132 Water bridges: A:N.33 GOL.9: 7 residues within 4Å: Chain B: C.81, E.82, L.88, V.109, T.111, P.114, N.115 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.82, B:N.115, B:N.115 GOL.10: 4 residues within 4Å: Chain B: W.32, K.35, D.36, K.39 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:W.32, B:D.36, B:K.39 Water bridges: B:K.35, B:K.35, B:S.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Langelier, M.F. et al., A Third Zinc-binding Domain of Human Poly(ADP-ribose) Polymerase-1 Coordinates DNA-dependent Enzyme Activation. J.Biol.Chem. (2008)

Release Date

2008-01-08

Peptides

Poly [ADP-ribose] polymerase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Poly [ADP-ribose] polymerase 1

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