SMTL ID : 1qtm.1

DDTTP-TRAPPED CLOSED TERNARY COMPLEX OF THE LARGE FRAGMENT OF DNA POLYMERASE I FROM THERMUS AQUATICUS

Coordinates

PDB Format

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

1 x TTP: THYMIDINE-5'-TRIPHOSPHATE(Non-covalent)

TTP.3: 18 residues within 4Å: Chain A: T.12 Chain B: A.2, A.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, Y.379, D.493 Ligands: MG.1, MG.2 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:I.322, C:E.323, C:F.375, C:F.375 Hydrogen bonds: C:R.281, C:D.318, C:Y.319, C:Q.321, C:I.322 Water bridges: C:E.323, C:K.371, C:K.539 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., Structure-based design of Taq DNA polymerases with improved properties of dideoxynucleotide incorporation. Proc.Natl.Acad.Sci.USA (1999)

Release Date

1999-08-16

Peptides

DNA POLYMERASE I: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

DNA POLYMERASE I