SMTL ID : 4br0.1

rat NTPDase2 in complex with Ca AMPNP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

1 x AU1: 5'-O-[(R)-hydroxy(phosphonoamino)phosphoryl]adenosine(Non-covalent)

AU1.1: 19 residues within 4Å: Chain A: G.42, S.43, S.44, H.45, T.117, A.118, G.119, E.160, G.198, G.199, A.200, S.201, R.240, D.241, A.342, Y.345, R.389, Y.393 Ligands: CA.2 24 PLIP interactions: 24 interactions with chain A Hydrogen bonds: A:S.43, A:S.43, A:S.44, A:S.44, A:S.44, A:H.45, A:T.117, A:A.118, A:G.119, A:G.199, A:A.200, A:S.201, A:S.201, A:R.240, A:R.389, A:Y.393 Water bridges: A:D.40, A:T.117, A:G.198, A:Q.203, A:R.240 pi-Stacking: A:Y.345 pi-Cation interactions: A:R.389, A:R.389

1 x CA: CALCIUM ION(Non-functional Binders)

CA.2: 1 residues within 4Å: Ligands: AU1.1 No protein-ligand interaction detected (PLIP)

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: R.240, D.241, L.244, R.389, D.392 Ligands: GOL.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.240, A:R.240, A:D.241, A:R.389 Water bridges: A:D.241 GOL.4: 6 residues within 4Å: Chain A: L.244, L.245, L.248, W.261, D.392 Ligands: GOL.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.261, A:D.392 GOL.5: 4 residues within 4Å: Chain A: F.163, L.223, N.438, I.443 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.438 Water bridges: A:L.437, A:I.443 GOL.6: 5 residues within 4Å: Chain A: R.246, S.250, C.279, Q.283, L.312 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.246, A:S.250, A:S.250, A:C.279, A:R.311 GOL.7: 4 residues within 4Å: Chain A: L.125, L.236, C.237, P.278 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.278 Water bridges: A:L.236

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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