SMTL ID : 9d6n.2 (1 other biounit)

Loop-Deleted DNA Polymerase Theta in Complex with a dsDNA Overhang and an Allostertic Inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.43 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.401, D.602 Ligands: DG3.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.401, A:D.602

1 x DG3: 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

DG3.2: 15 residues within 4Å: Chain A: R.354, Q.404, E.406, F.430, R.450, K.454, Q.455, Y.458, Y.462, N.541, D.602 Chain B: C.10, G.11 Chain C: C.14 Ligands: MG.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.458 Hydrogen bonds: A:R.354, A:Q.404, A:Q.455, A:Y.458, A:N.541 Water bridges: A:E.406, A:Q.451, A:Y.462 Salt bridges: A:R.450, A:K.454, A:K.454, A:K.454 pi-Stacking: A:Y.458, A:Y.458

1 x 01: 2-{3-[(2R)-3-(dimethylamino)-2-hydroxypropyl]-2-oxoimidazolidin-1-yl}-4,6-bis(trifluoromethyl)phenyl (4-fluorophenyl)(methyl)carbamate

01.3: 19 residues within 4Å: Chain A: L.407, R.418, L.419, V.422, V.429, S.432, I.433, E.436, W.437, I.456, C.457, I.460, I.461, M.473, Y.483, S.486, F.487, R.490, Y.491 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:V.429, A:I.433, A:I.456, A:I.460, A:Y.483, A:Y.483, A:F.487, A:F.487, A:Y.491 Hydrogen bonds: A:R.418, A:S.432, A:S.432, A:R.490

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fried, W. et al., Loop-Deleted DNA Polymerase Theta in Complex with a dsDNA Overhang and an Allostertic Inhibitor. To Be Published

Release Date

2025-08-20

Peptides

DNA polymerase theta: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

DNA polymerase theta

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