SMTL ID : 4bwm.1

KlenTaq mutant in complex with a RNA/DNA hybrid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

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

DCT.1: 12 residues within 4Å: Chain A: Q.321, E.323, L.324, H.347, R.367, K.371, F.375, D.493 Chain B: C.12 Chain C: G.4, G.5 Ligands: MG.4 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:F.375, A:F.375, A:F.375 Hydrogen bonds: A:Q.321, A:Q.321 Water bridges: A:R.281, A:E.323, A:K.371, A:K.371 Salt bridges: A:H.347, A:H.347, A:R.367, A:K.371, A:K.371, A:K.371

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: R.158, R.267, E.309 Ligand excluded by PLIP CL.3: 4 residues within 4Å: Chain A: V.438, P.439, D.440, A.452 Ligand excluded by PLIP

3 x MG: MAGNESIUM ION(Non-functional Binders)

MG.4: 1 residues within 4Å: Ligands: DCT.1 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain B: G.10, C.11 No protein-ligand interaction detected (PLIP) MG.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

4 x FMT: FORMIC ACID(Non-functional Binders)

FMT.5: 4 residues within 4Å: Chain A: W.125, E.132, L.135, R.139 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.139, A:R.139 Water bridges: A:W.125 FMT.6: 3 residues within 4Å: Chain A: R.57, D.79, R.143 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.57, A:D.79, A:R.143, A:R.143 FMT.7: 3 residues within 4Å: Chain A: Y.253, N.288, N.291 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.253, A:N.291 Water bridges: A:N.288 FMT.10: 3 residues within 4Å: Chain A: Q.290 Chain C: G.6, C.7 2 PLIP interactions: 2 interactions with chain A Water bridges: A:N.288, A:Q.290

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Blatter, N. et al., Structure and Function of an RNA-Reading Thermostable DNA Polymerase. Angew.Chem.Int.Ed.Engl. (2013)

Release Date

2013-09-18

Peptides

DNA POLYMERASE I, THERMOSTABLE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA POLYMERASE I, THERMOSTABLE

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