SMTL ID : 2hhq.1

O6-methyl-guanine:T pair in the polymerase-10 basepair position

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

3 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)

GLC-FRU.1: 11 residues within 4Å: Chain C: E.29, N.30, Y.31, D.76, R.79, L.99, D.112, I.309, N.311, A.313, E.324 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.79, C:D.112, C:N.311, C:N.311, C:A.313, C:R.79, C:E.324 Water bridges: C:D.76, C:R.79, C:Q.312 GLC-FRU.2: 8 residues within 4Å: Chain B: T.8, C.9 Chain C: Y.223, F.230, N.231, I.232, N.233, Y.281 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:E.229, C:N.231, C:Y.223, C:I.232, C:N.233, C:N.233 Water bridges: C:E.219, C:Q.237, C:N.231, C:Y.281 GLC-FRU.3: 5 residues within 4Å: Chain C: E.455, V.458, K.462, R.488, E.492 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:E.455, C:K.462, C:K.462, C:E.492 Water bridges: C:E.455, C:R.488, C:R.488

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 4 residues within 4Å: Chain C: K.2, M.3, A.4, R.47 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:A.4 Salt bridges: C:R.47 SO4.5: 3 residues within 4Å: Chain C: H.386, R.406, K.410 3 PLIP interactions: 3 interactions with chain C Water bridges: C:Q.360 Salt bridges: C:R.406, C:K.410 SO4.6: 1 residues within 4Å: Chain C: R.523 3 PLIP interactions: 3 interactions with chain C Water bridges: C:K.520, C:R.523 Salt bridges: C:R.523

1 x MG: MAGNESIUM ION(Non-covalent)

MG.7: 3 residues within 4Å: Chain C: D.357, Y.358, D.534 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.357, C:Y.358, C:D.534

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Warren, J.J. et al., The structural basis for the mutagenicity of O6-methyl-guanine lesions. Proc.Natl.Acad.Sci.Usa (2006)

Release Date

2006-12-12

Peptides

DNA polymerase I: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

DNA polymerase I

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