SMTL ID : 2is4.1

Crystal structure of UvrD-DNA-ADPNP ternary complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain C: T.36, D.220, E.221 Ligands: ANP.2 4 PLIP interactions: 1 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:T.36, H2O.1, H2O.1, H2O.1 MG.3: 3 residues within 4Å: Chain D: T.36, E.221 Ligands: ANP.4 4 PLIP interactions: 1 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:T.36, H2O.3, H2O.3, H2O.3

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.2: 19 residues within 4Å: Chain C: S.9, Q.14, G.30, A.31, G.32, S.33, G.34, K.35, T.36, R.37, R.73, E.221, Q.251, Y.283, R.284, G.564, E.566, R.605 Ligands: MG.1 33 PLIP interactions: 33 interactions with chain C Hydrogen bonds: C:Q.14, C:Q.14, C:G.32, C:S.33, C:G.34, C:K.35, C:K.35, C:K.35, C:K.35, C:T.36, C:T.36, C:R.37, C:R.37, C:E.221, C:Q.251, C:Q.251, C:R.284, C:R.284, C:E.566, C:R.605, C:R.605 Water bridges: C:R.37, C:R.73, C:R.73, C:R.73, C:G.564, C:G.564 Salt bridges: C:R.73, C:R.284 pi-Stacking: C:Y.283, C:Y.283 pi-Cation interactions: C:R.37, C:R.37 ANP.4: 18 residues within 4Å: Chain D: S.9, Q.14, A.31, G.32, S.33, G.34, K.35, T.36, R.37, R.73, E.221, Q.251, Y.283, R.284, G.564, E.566, R.605 Ligands: MG.3 32 PLIP interactions: 32 interactions with chain D Hydrogen bonds: D:Q.14, D:Q.14, D:G.32, D:S.33, D:G.34, D:K.35, D:K.35, D:K.35, D:K.35, D:T.36, D:R.37, D:R.37, D:E.221, D:Q.251, D:Q.251, D:R.284, D:R.284, D:E.566, D:R.605, D:R.605 Water bridges: D:T.36, D:R.73, D:R.73, D:E.221, D:G.564, D:G.564 Salt bridges: D:R.73, D:R.284 pi-Stacking: D:Y.283, D:Y.283 pi-Cation interactions: D:R.37, D:R.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, J.Y. et al., UvrD helicase unwinds DNA one base pair at a time by a two-part power stroke. Cell(Cambridge,Mass.) (2006)

Release Date

2007-01-09

Peptides

DNA helicase II: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

D
B

DNA helicase II

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