SMTL ID : 1rys.2 (1 other biounit)

REPLICATION OF A CIS-SYN THYMINE DIMER AT ATOMIC RESOLUTION

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

monomer

Ligands

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

NA.1: 2 residues within 4Å: Chain B: C.2 Chain C: R.331 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.331 Water bridges: C:N.254

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 6 residues within 4Å: Chain B: T.4, T.5 Chain C: Y.12, M.76, K.78 Ligands: ATP.5 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Y.12 Water bridges: C:K.78, C:K.78

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 4 residues within 4Å: Chain C: D.7, F.8, D.105 Ligands: ATP.5 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.7, C:F.8, C:D.105 CA.4: 2 residues within 4Å: Chain C: A.181, I.186 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:A.181, H2O.1, H2O.1, H2O.9, H2O.13

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.5: 18 residues within 4Å: Chain A: A.13 Chain B: T.4 Chain C: D.7, F.8, D.9, Y.10, F.11, Y.12, A.44, T.45, Y.48, R.51, A.57, G.58, D.105, K.159 Ligands: EDO.2, CA.3 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:Y.12 Hydrogen bonds: C:Y.10, C:F.11, C:T.45, C:Y.48, C:Y.48 Water bridges: C:Y.12, C:V.43, C:T.45, C:R.51, C:A.57, C:A.57, C:G.58, C:K.159, C:K.159 Salt bridges: C:R.51, C:R.51, C:K.159

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ling, H. et al., Replication of a Cis-Syn Thymine Dimer at Atomic Resolution. Nature (2003)

Release Date

2004-02-10

Peptides

DNA polymerase IV: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
B

DNA polymerase IV

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