SMTL ID : 4bqz.1

Rat NTPDase2 in complex with Mg GMPPNP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.1: 21 residues within 4Å: Chain A: G.42, S.43, S.44, H.45, T.117, A.118, G.119, E.160, L.197, G.198, G.199, A.200, S.201, R.240, D.241, S.341, A.342, Y.345, R.389, Y.393 Ligands: MG.2 28 PLIP interactions: 28 interactions with chain A Hydrogen bonds: A:S.43, A:S.44, A:S.44, A:S.44, A:H.45, A:H.45, A:T.117, A:T.117, A:A.118, A:G.119, A:G.199, A:A.200, A:S.201, A:R.240, A:D.241, A:R.389, A:Y.393, A:Y.393 Water bridges: A:E.160, A:E.160, A:E.160, A:G.198, A:R.240 Salt bridges: A:H.45 pi-Stacking: A:Y.345, A:Y.345 pi-Cation interactions: A:R.389, A:R.389

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

MG.2: 1 residues within 4Å: Ligands: GNP.1 No protein-ligand interaction detected (PLIP)

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: L.244, L.245, L.248, W.261, D.392 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.392 Water bridges: A:H.258 GOL.4: 5 residues within 4Å: Chain A: L.172, N.174, K.189, L.192, N.336 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.174, A:K.189 GOL.5: 5 residues within 4Å: Chain A: V.347, D.348, T.351, V.358, F.420 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.348, A:T.351

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zebisch, M. et al., Crystallographic Snapshots Along the Reaction Pathway of Nucleoside Triphosphate Diphosphohydrolases. Structure (2013)

Release Date

2013-07-17

Peptides

ECTONUCLEOSIDE TRIPHOSPHATE DIPHOSPHOHYDROLASE 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ECTONUCLEOSIDE TRIPHOSPHATE DIPHOSPHOHYDROLASE 2

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