SMTL ID : 3ktq.1

CRYSTAL STRUCTURE OF AN ACTIVE TERNARY COMPLEX OF THE LARGE FRAGMENT OF DNA POLYMERASE I FROM THERMUS AQUATICUS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain C: D.318, Y.319, D.493 Ligands: MG.2, DCT.3 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.318, C:Y.319, C:D.493 MG.2: 6 residues within 4Å: Chain A: C.12 Chain C: D.318, D.493, E.494 Ligands: MG.1, DCT.3 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.318, C:D.493, H2O.1, H2O.5

1 x DCT: 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE(Non-covalent)

DCT.3: 17 residues within 4Å: Chain A: C.12 Chain B: G.2, G.3 Chain C: R.281, D.318, Y.319, S.320, Q.321, I.322, E.323, H.347, R.367, K.371, F.375, D.493 Ligands: MG.1, MG.2 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:I.322, C:E.323, C:F.375, C:F.375 Hydrogen bonds: C:R.281, C:S.320, C:Q.321, C:I.322 Water bridges: C:E.323, C:K.371, C:K.371, C:K.371, C:K.371 Salt bridges: C:H.347, C:R.367, C:K.371, C:K.371, C:K.371

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Y. et al., Crystal structures of open and closed forms of binary and ternary complexes of the large fragment of Thermus aquaticus DNA polymerase I: structural basis for nucleotide incorporation. EMBO J. (1998)

Release Date

1999-01-13

Peptides

PROTEIN (LARGE FRAGMENT OF DNA POLYMERASE I): C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

PROTEIN (LARGE FRAGMENT OF DNA POLYMERASE I)

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