SMTL ID : 3e5r.1

Crystal structure and Functional Analysis of Glyceraldehyde-3-phosphate Dehydrogenase from Oryza Sativa

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 20 residues within 4Å: Chain A: N.9, G.10, F.11, G.12, R.13, I.14, N.34, D.35, P.36, F.37, T.101, G.102, S.124, A.125, C.154, A.185, N.318, E.319, Y.322 Chain C: P.193 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:I.14, A:Y.322 Hydrogen bonds: A:F.11, A:F.11, A:R.13, A:I.14, A:N.318, A:N.318 Water bridges: A:G.12, A:G.12, A:R.16 NAD.2: 23 residues within 4Å: Chain B: N.9, G.10, F.11, G.12, R.13, I.14, N.34, D.35, P.36, F.37, R.82, T.101, G.102, F.104, S.124, A.125, P.126, C.154, A.185, N.318, E.319, Y.322 Chain D: P.193 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:I.14, B:Y.322 Hydrogen bonds: B:N.9, B:F.11, B:R.13, B:I.14, B:N.34, B:R.82, B:N.318, B:N.318 Water bridges: B:G.12, B:R.16 NAD.3: 25 residues within 4Å: Chain A: P.193 Chain C: N.9, G.10, F.11, G.12, R.13, I.14, N.34, D.35, P.36, F.37, I.38, I.81, R.82, S.100, T.101, G.102, F.104, S.124, A.125, C.154, A.185, N.318, E.319, Y.322 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:I.14, C:Y.322 Hydrogen bonds: C:N.9, C:F.11, C:F.11, C:R.13, C:I.14, C:N.34, C:R.82, C:N.318, C:N.318 Water bridges: C:G.12, C:G.102, C:A.185, C:A.185, C:E.319 pi-Stacking: C:F.37 NAD.4: 24 residues within 4Å: Chain B: P.193 Chain D: N.9, G.10, F.11, G.12, R.13, I.14, N.34, D.35, P.36, F.37, I.38, R.82, S.100, T.101, G.102, F.104, S.124, A.125, C.154, A.185, N.318, E.319, Y.322 16 PLIP interactions: 16 interactions with chain D Hydrophobic interactions: D:I.14, D:Y.322 Hydrogen bonds: D:N.9, D:F.11, D:R.13, D:I.14, D:G.15, D:N.34, D:R.82, D:N.318, D:N.318 Water bridges: D:G.12, D:G.12, D:R.16, D:G.102, D:E.319

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tien, Y.C. et al., Crystal structure and Functional Analysis of Glyceraldehyde-3-phosphate Dehydrogenase from Oryza Sativa. To be published

Release Date

2009-08-18

Peptides

Glyceraldehyde-3-phosphate dehydrogenase, cytosolic: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
O

B
A

C
B

D
C

Glyceraldehyde-3-phosphate dehydrogenase, cytosolic

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