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SMTL ID : 1mq2.1

Human DNA Polymerase Beta Complexed With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine and dAMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

monomer

Ligands

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

DG-DT-DC-DG-DG.1:

16 residues within 4Å:

Chain A: C.1, C.2, G.3, A.4, C.5
Chain C: K.35, A.38, Y.39, L.62, G.64, V.65, G.66, T.67, K.68, I.69
Ligands: NA.4

2 PLIP interactions:

2 interactions with chain C

Hydrogen bonds: C:H.34
pi-Stacking: C:H.34

1 x D5M: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE(Non-covalent)

D5M.2:

3 residues within 4Å:

Chain A: G.6
Chain B: A.10
Chain C: D.276

2 PLIP interactions:

2 interactions with chain C

Hydrophobic interactions: C:D.276
Hydrogen bonds: C:Y.271

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

NA.3:	5 residues within 4Å: Chain B: G.9 Chain C: T.101, V.103, G.105, I.106 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:V.103, C:G.105, C:I.106
NA.4:	4 residues within 4Å: Chain C: K.60, L.62, V.65 Ligands: DG-DT-DC-DG-DG.1 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.60, C:V.65

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Krahn, J.M. et al., Structure of DNA Polymerase beta with the Mutagenic DNA Lesion 8-oxodeoxyguanine Reveals Structural Insights into its Coding Potential. Structure (2003)

Release Date

2003-01-28

Peptides

DNA POLYMERASE BETA: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

DNA POLYMERASE BETA

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