SMTL ID : 7mz3.1

Structure of human DNA polymerase beta complexed with 3-deaza-3-methyladenine (3dMeA) as the template base in a 1-nucleotide gapped DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.42 Å

Oligo State

monomer

Ligands

1 x DG- DT- DC- DG- DG: DNA (5'-D(P*GP*TP*CP*GP*G)-3')(Non-covalent)

DG-DT-DC-DG-DG.1: 17 residues within 4Å: Chain A: K.29, A.32, Y.33, L.56, P.57, G.58, V.59, G.60, T.61, K.62, I.63 Chain B: C.1, C.2, G.3, A.4, C.5 Ligands: NA.3 1 PLIP interactions: 1 interactions with chain A pi-Stacking: A:H.28

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 6 residues within 4Å: Chain A: T.95, V.97, S.98, G.99, I.100 Chain C: G.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.99, A:I.100, A:I.100 NA.3: 4 residues within 4Å: Chain A: K.54, L.56, V.59 Ligands: DG-DT-DC-DG-DG.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.56

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Koag, M.-C. et al., Structure of human DNA polymerase beta complexed with 3-deaza-3-methyladenine (3dMeA) as the template base in a 1-nucleotide gapped DNA. To Be Published

Release Date

2022-06-01

Peptides

DNA polymerase beta: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA polymerase beta

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