SMTL ID : 1gpd.1

STUDIES OF ASYMMETRY IN THE THREE-DIMENSIONAL STRUCTURE OF LOBSTER D-GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 18 residues within 4Å: Chain A: G.8, F.9, G.10, R.11, I.12, N.31, D.32, P.33, F.34, I.35, S.95, G.97, F.99, S.119, A.120, C.149, N.313, E.314 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:I.12 Hydrogen bonds: A:G.8, A:I.12, A:N.31, A:F.34, A:S.95, A:G.97, A:S.119, A:E.314 NAD.6: 17 residues within 4Å: Chain B: N.7, G.8, F.9, G.10, R.11, I.12, D.32, F.34, S.95, T.96, G.97, F.99, S.119, A.120, C.149, N.313, Y.317 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.317 Hydrogen bonds: B:F.9, B:I.12, B:T.96, B:S.119 NAD.7: 18 residues within 4Å: Chain C: G.8, F.9, G.10, R.11, I.12, N.31, D.32, P.33, F.34, I.35, S.95, G.97, F.99, S.119, A.120, C.149, N.313, E.314 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:I.12 Hydrogen bonds: C:G.8, C:I.12, C:N.31, C:D.32, C:F.34, C:S.95, C:G.97, C:S.119, C:E.314 NAD.12: 17 residues within 4Å: Chain D: N.7, G.8, F.9, G.10, R.11, I.12, D.32, F.34, S.95, T.96, G.97, F.99, S.119, A.120, C.149, N.313, Y.317 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:Y.317 Hydrogen bonds: D:F.9, D:I.12, D:T.96, D:S.119

8 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 3 residues within 4Å: Chain D: T.179, R.231 Ligands: PO4.10 No protein-ligand interaction detected (PLIP) PO4.3: 5 residues within 4Å: Chain D: S.148, T.150, T.208, G.209 Ligands: PO4.11 No protein-ligand interaction detected (PLIP) PO4.4: 2 residues within 4Å: Chain B: T.179 Ligands: PO4.8 No protein-ligand interaction detected (PLIP) PO4.5: 5 residues within 4Å: Chain B: S.148, T.150, T.208, G.209 Ligands: PO4.9 No protein-ligand interaction detected (PLIP) PO4.8: 3 residues within 4Å: Chain B: T.179, R.231 Ligands: PO4.4 No protein-ligand interaction detected (PLIP) PO4.9: 5 residues within 4Å: Chain B: S.148, T.150, T.208, G.209 Ligands: PO4.5 No protein-ligand interaction detected (PLIP) PO4.10: 2 residues within 4Å: Chain D: T.179 Ligands: PO4.2 No protein-ligand interaction detected (PLIP) PO4.11: 5 residues within 4Å: Chain D: S.148, T.150, T.208, G.209 Ligands: PO4.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Moras, D. et al., Studies of asymmetry in the three-dimensional structure of lobster D-glyceraldehyde-3-phosphate dehydrogenase. J.Biol.Chem. (1975)

Release Date

1977-02-17

Peptides

D-GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
R

C
G

D
R

D-GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE