SMTL ID : 2wtf.2 (1 other biounit)

DNA POLYMERASE ETA IN COMPLEX WITH THE CIS-DIAMMINEPLATINUM (II) 1,3-GTG INTRASTRAND CROSS-LINK

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x DG- DT- DG- DG- DT- DG- DA- DG- DC: 5'-D(*GP*TP*GP*GP*TP*GP*AP*GP*CP)-3'(Non-covalent)

DG-DT-DG-DG-DT-DG-DA-DG-DC.1: 17 residues within 4Å: Chain A: F.58, S.176, I.177, G.333, V.334, R.479 Chain B: G.9, C.10, T.11, C.12, A.13, C.14, C.15, A.16, C.17 Ligands: DTP.4, CPT.9 Protein-ligand interaction information (PLIP) not available

6 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: D.53, D.178, E.179 Ligands: CA.3, DTP.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.53, A:D.178, A:E.179, H2O.20 CA.3: 5 residues within 4Å: Chain A: D.53, M.54, D.178 Ligands: CA.2, DTP.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.53, A:M.54, A:D.178 CA.5: 2 residues within 4Å: Chain A: G.121, E.440 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:G.121, A:E.440 CA.6: 2 residues within 4Å: Chain A: T.254, D.312 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.312, A:D.312 CA.7: 2 residues within 4Å: Chain A: D.341, D.344 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.341, A:D.344 CA.8: 3 residues within 4Å: Chain A: G.321, E.324, E.348 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:G.321

1 x DTP: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE(Non-covalent)

DTP.4: 19 residues within 4Å: Chain A: D.53, M.54, N.55, A.56, F.57, F.58, I.83, A.84, Y.87, R.90, R.96, D.178, K.302 Chain B: T.6, G.7, G.9 Ligands: DG-DT-DG-DG-DT-DG-DA-DG-DC.1, CA.2, CA.3 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.58 Hydrogen bonds: A:D.53, A:A.56, A:F.57, A:F.58, A:Y.87, A:Y.87 Water bridges: A:D.53 Salt bridges: A:R.90, A:R.96, A:R.96, A:K.302

1 x CPT: CISPLATIN(Non-functional Binders)

CPT.9: 5 residues within 4Å: Chain B: T.6, G.7, G.9, C.10 Ligands: DG-DT-DG-DG-DT-DG-DA-DG-DC.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reissner, T. et al., Crystal Structure of a Cisplatin-(1,3-Gtg) Cross-Link within DNA Polymerase Eta. Angew.Chem.Int.Ed.Engl. (2010)

Release Date

2010-03-31

Peptides

DNA POLYMERASE ETA: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

DNA POLYMERASE ETA

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