SMTL ID : 8gbf.1

Crystal structure of human DNA polymerase eta incorporating syn-ITP across dT

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.11 Å

Oligo State

monomer

Ligands

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

DA-DG-DT-DG-DT-DG-DA-DG.1: 26 residues within 4Å: Chain A: S.113, D.115, E.116, K.224, R.256, S.257, L.258, G.259, G.260, K.261, L.262, R.377, L.381, R.382, R.383, C.384 Chain B: T.4, C.5, T.6, C.7, A.8, C.9, A.10, C.11, T.12 Ligands: CZU.2 Protein-ligand interaction information (PLIP) not available

1 x CZU: [[(2~{R},3~{S},4~{R},5~{R})-3,4-bis(oxidanyl)-5-(6-oxidanylidene-1~{H}-purin-9-yl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate(Non-covalent)

CZU.2: 18 residues within 4Å: Chain A: D.13, M.14, D.15, C.16, F.17, F.18, I.48, Y.52, R.55, R.61, I.114, D.115, E.116, K.231 Chain B: T.3, T.4 Ligands: DA-DG-DT-DG-DT-DG-DA-DG.1, CA.3 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:C.16, A:F.17, A:I.48, A:Y.52, A:R.61, A:E.116 Water bridges: A:R.55 Salt bridges: A:R.55, A:R.55, A:R.61, A:R.61, A:K.231

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 4 residues within 4Å: Chain A: D.13, M.14, D.115 Ligands: CZU.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.13, A:D.13, A:M.14, A:D.115

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jung, H., Crystal structure of human DNA polymerase eta incorporating syn-ITP across dT. To Be Published

Release Date

2024-02-28

Peptides

DNA polymerase eta: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA polymerase eta

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