SMTL ID : 1tc6.4 (3 other biounits)

Ligand Induced Conformational Shift in the N-terminal Domain of GRP94, Open Conformation ADP-Complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.87 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: N.43 Ligands: ADP.2 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain B: N.43 Ligands: ADP.7 No protein-ligand interaction detected (PLIP) MG.10: 2 residues within 4Å: Chain C: N.43 Ligands: ADP.11 No protein-ligand interaction detected (PLIP) MG.15: 2 residues within 4Å: Chain D: N.43 Ligands: ADP.16 No protein-ligand interaction detected (PLIP)

4 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 12 residues within 4Å: Chain A: N.43, A.47, D.85, G.89, M.90, N.98, L.99, I.102, G.134, F.135, T.181 Ligands: MG.1 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:N.43, A:D.85, A:N.98, A:F.135, A:T.181 Water bridges: A:D.46, A:A.47, A:K.50, A:K.50, A:D.85, A:G.134, A:Y.136 ADP.7: 11 residues within 4Å: Chain A: K.31 Chain B: N.43, A.47, D.85, M.90, N.98, L.99, G.134, F.135, T.181 Ligands: MG.6 18 PLIP interactions: 14 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:N.43, B:D.85, B:F.135, B:T.181 Water bridges: B:E.39, B:E.39, B:N.43, B:D.46, B:A.47, B:D.85, B:G.87, B:N.98, B:N.98, B:N.98, A:K.31, A:K.31, A:K.31 Salt bridges: A:K.31 ADP.11: 12 residues within 4Å: Chain C: N.43, A.47, D.85, G.89, M.90, N.98, L.99, I.102, G.134, F.135, T.181 Ligands: MG.10 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:N.43, C:D.46, C:D.85, C:N.98, C:F.135 Water bridges: C:E.39, C:D.46, C:A.47, C:K.50, C:K.50, C:D.85, C:E.94, C:Y.136, C:T.181, C:T.181 ADP.16: 11 residues within 4Å: Chain C: K.31 Chain D: N.43, A.47, D.85, M.90, N.98, L.99, G.134, F.135, T.181 Ligands: MG.15 18 PLIP interactions: 14 interactions with chain D, 4 interactions with chain C Hydrogen bonds: D:N.43, D:D.85, D:F.135 Water bridges: D:E.39, D:N.43, D:D.46, D:D.46, D:A.47, D:D.85, D:G.87, D:N.98, D:N.98, D:N.98, D:T.181, C:K.31, C:K.31, C:K.31 Salt bridges: C:K.31

10 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.3: 7 residues within 4Å: Chain A: I.146, T.148, R.173, T.176, T.182, T.184 Ligands: PG4.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.148, A:R.173, A:R.173 Water bridges: A:T.184 PG4.4: 5 residues within 4Å: Chain A: G.64, N.65, N.175, T.176, G.178 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.175, A:N.175 Water bridges: A:N.65 PG4.5: 4 residues within 4Å: Chain A: T.84, L.177, T.182 Ligands: PG4.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.84, A:L.177 Hydrogen bonds: A:H.82, A:T.84 PG4.8: 3 residues within 4Å: Chain B: K.73, W.218, W.232 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.73 Water bridges: B:K.73 PG4.9: 4 residues within 4Å: Chain B: K.73, H.82, T.84, T.182 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.84 Water bridges: B:K.73, B:K.73, B:T.84 PG4.12: 7 residues within 4Å: Chain C: I.146, T.148, R.173, T.176, T.182, T.184 Ligands: PG4.14 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.148, C:R.173, C:R.173, C:T.184 PG4.13: 5 residues within 4Å: Chain C: G.64, N.65, N.175, T.176, G.178 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.175, C:N.175 Water bridges: C:N.65 PG4.14: 4 residues within 4Å: Chain C: T.84, L.177, T.182 Ligands: PG4.12 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:T.84, C:L.177 Hydrogen bonds: C:H.82, C:T.182 PG4.17: 3 residues within 4Å: Chain D: K.73, W.218, W.232 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:K.73 Water bridges: D:K.73 PG4.18: 4 residues within 4Å: Chain D: K.73, H.82, T.84, T.182 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:T.84, D:T.84 Water bridges: D:K.73, D:K.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Immormino, R.M. et al., Ligand-induced Conformational Shift in the N-terminal Domain of GRP94, an Hsp90 Chaperone. J.Biol.Chem. (2004)

Release Date

2004-08-24

Peptides

Endoplasmin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Endoplasmin

Related Entries With Identical Sequence