SMTL ID : 3zx3.2 (1 other biounit)

Crystal Structure and Domain Rotation of NTPDase1 CD39

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

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

CL.1: 4 residues within 4Å: Chain A: G.189, G.190, A.191, S.192 Ligand excluded by PLIP CL.2: 5 residues within 4Å: Chain A: S.43, G.190, A.191, D.233, Q.234 Ligand excluded by PLIP CL.3: 6 residues within 4Å: Chain A: G.42, S.43, G.76, I.77, S.78, G.119 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain A: K.381, E.382 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain A: Y.377, P.378, T.379 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain A: A.206, P.207, E.208 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain B: G.189, G.190, A.191, S.192 Ligand excluded by PLIP CL.12: 5 residues within 4Å: Chain B: S.43, G.190, A.191, D.233, Q.234 Ligand excluded by PLIP CL.13: 7 residues within 4Å: Chain B: G.42, S.43, G.76, I.77, S.78, G.119, M.120 Ligand excluded by PLIP CL.14: 2 residues within 4Å: Chain B: K.381, E.382 Ligand excluded by PLIP CL.15: 3 residues within 4Å: Chain B: Y.377, P.378, T.379 Ligand excluded by PLIP CL.16: 5 residues within 4Å: Chain A: P.207 Chain B: R.121, R.124, I.155, T.156 Ligand excluded by PLIP CL.17: 3 residues within 4Å: Chain B: A.206, P.207, E.208 Ligand excluded by PLIP CL.18: 5 residues within 4Å: Chain B: P.259, G.260, P.369, W.370, E.371 Ligand excluded by PLIP CL.19: 2 residues within 4Å: Chain B: G.329, Q.412 Ligand excluded by PLIP

4 x ACY: ACETIC ACID(Non-functional Binders)

ACY.7: 7 residues within 4Å: Chain A: M.341, F.344, M.358, T.362, G.392, I.395, L.396 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.395 Hydrogen bonds: A:T.362 ACY.8: 8 residues within 4Å: Chain A: L.304, F.307, N.309, A.318, F.319, S.397, Q.401, G.402 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.307, A:Q.401 Hydrogen bonds: A:N.309, A:A.318 ACY.20: 6 residues within 4Å: Chain B: M.341, F.344, M.358, T.362, G.392, L.396 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.344 ACY.21: 8 residues within 4Å: Chain B: L.304, F.307, N.309, A.318, F.319, S.397, Q.401, G.402 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.307, B:Q.401 Hydrogen bonds: B:N.309, B:A.318

4 x NA: SODIUM ION(Non-functional Binders)

NA.9: 2 residues within 4Å: Chain A: L.304, F.307 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.304 Water bridges: A:N.309 NA.10: 5 residues within 4Å: Chain A: C.317, A.318, Q.401, G.402, N.404 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.402, A:N.404 NA.22: 3 residues within 4Å: Chain B: L.304, K.305, F.307 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:L.304 Water bridges: B:N.309 NA.23: 5 residues within 4Å: Chain B: C.317, A.318, Q.401, G.402, N.404 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.318, B:N.404

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zebisch, M. et al., Crystallographic Evidence for a Domain Motion in Rat Nucleoside Triphosphate Diphosphohydrolase (Ntpdase) 1. J.Mol.Biol. (2012)

Release Date

2011-11-30

Peptides

ECTONUCLEOSIDE TRIPHOSPHATE DIPHOSPHOHYDROLASE 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

ECTONUCLEOSIDE TRIPHOSPHATE DIPHOSPHOHYDROLASE 1

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