SMTL ID : 7mdh.3 (3 other biounits)

STRUCTURAL BASIS FOR LIGHT ACITVATION OF A CHLOROPLAST ENZYME. THE STRUCTURE OF SORGHUM NADP-MALATE DEHYDROGENASE IN ITS OXIDIZED FORM

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

18 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: N.159, C.161, L.183, H.215 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.161, A:H.215, H2O.1 ZN.2: 5 residues within 4Å: Chain A: D.307, K.349, E.358 Chain C: T.298, E.306 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain C Metal complexes: A:D.307, A:E.358, C:E.306, C:E.306 ZN.3: 3 residues within 4Å: Chain A: D.187, H.215, L.371 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.187, A:H.215, H2O.1 ZN.4: 3 residues within 4Å: Chain A: D.9, E.104, E.107 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.9, A:D.9, A:E.104, A:E.107, A:E.107 ZN.5: 1 residues within 4Å: Chain B: E.95 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.95, H2O.3 ZN.6: 2 residues within 4Å: Chain B: D.108, V.147 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.108, H2O.3, H2O.3 ZN.7: 3 residues within 4Å: Chain B: D.187, H.215, L.371 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.187, B:H.215, H2O.4 ZN.8: 3 residues within 4Å: Chain B: N.159, C.161, H.215 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:C.161, B:H.215 ZN.9: 2 residues within 4Å: Chain B: T.240, E.244 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.244, B:E.244 ZN.10: 4 residues within 4Å: Chain C: N.159, C.161, L.183, H.215 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:C.161, C:H.215, H2O.7 ZN.11: 5 residues within 4Å: Chain A: T.298, E.306 Chain C: D.307, K.349, E.358 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain A Metal complexes: C:D.307, C:E.358, A:E.306, A:E.306 ZN.12: 3 residues within 4Å: Chain C: D.187, H.215, L.371 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.187, C:H.215, H2O.7 ZN.13: 3 residues within 4Å: Chain C: D.9, E.104, E.107 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.9, C:D.9, C:E.104, C:E.107, C:E.107 ZN.14: 1 residues within 4Å: Chain D: E.95 2 PLIP interactions: 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.95, H2O.8 ZN.15: 2 residues within 4Å: Chain D: D.108, V.147 3 PLIP interactions: 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.108, H2O.9, H2O.9 ZN.16: 3 residues within 4Å: Chain D: D.187, H.215, L.371 3 PLIP interactions: 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.187, D:H.215, H2O.10 ZN.17: 3 residues within 4Å: Chain D: N.159, C.161, H.215 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:C.161, D:H.215 ZN.18: 2 residues within 4Å: Chain D: T.240, E.244 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:E.244, D:E.244

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johansson, K. et al., Structural basis for light activation of a chloroplast enzyme: the structure of sorghum NADP-malate dehydrogenase in its oxidized form. Biochemistry (1999)

Release Date

1999-06-04

Peptides

PROTEIN (MALATE DEHYDROGENASE): ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

PROTEIN (MALATE DEHYDROGENASE)

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