SMTL ID : 4ivg.2 (1 other biounit)

Crystal structure of mitochondrial Hsp90 (TRAP1) NTD-Middle domain dimer with AMPPNP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-tetramer

Ligands

4 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 21 residues within 4Å: Chain A: E.58, N.62, A.66, K.69, D.101, M.106, N.114, L.115, R.120, S.121, G.122, G.142, Q.143, F.144, G.145, V.146, G.147, F.148, T.194, R.345 Ligands: MG.3 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:E.58, A:N.62, A:K.69, A:D.101, A:S.121, A:S.121, A:G.122, A:Q.143, A:F.144, A:G.145, A:V.146, A:V.146, A:G.147, A:F.148, A:R.345, A:R.345 Water bridges: A:E.58, A:E.58, A:N.62, A:D.65, A:A.66, A:K.69, A:D.101, A:G.105, A:T.194 ANP.4: 21 residues within 4Å: Chain B: E.58, N.62, A.66, K.69, D.101, M.106, N.114, L.115, R.120, S.121, G.122, G.142, Q.143, F.144, G.145, V.146, G.147, F.148, T.194, R.345 Ligands: MG.6 25 PLIP interactions: 25 interactions with chain B Hydrogen bonds: B:E.58, B:N.62, B:K.69, B:D.101, B:S.121, B:S.121, B:G.122, B:Q.143, B:F.144, B:G.145, B:V.146, B:V.146, B:G.147, B:F.148, B:R.345, B:R.345 Water bridges: B:E.58, B:E.58, B:N.62, B:D.65, B:A.66, B:K.69, B:D.101, B:G.105, B:T.194 ANP.7: 21 residues within 4Å: Chain C: E.58, N.62, A.66, K.69, D.101, M.106, N.114, L.115, R.120, S.121, G.122, G.142, Q.143, F.144, G.145, V.146, G.147, F.148, T.194, R.345 Ligands: MG.9 23 PLIP interactions: 23 interactions with chain C Hydrogen bonds: C:E.58, C:K.69, C:D.101, C:S.121, C:S.121, C:G.122, C:Q.143, C:F.144, C:G.145, C:V.146, C:V.146, C:G.147, C:F.148, C:T.194, C:R.345, C:R.345 Water bridges: C:N.62, C:N.62, C:D.65, C:A.66, C:K.69, C:D.101, C:G.105 ANP.10: 21 residues within 4Å: Chain D: E.58, N.62, A.66, K.69, D.101, M.106, N.114, L.115, R.120, S.121, G.122, G.142, Q.143, F.144, G.145, V.146, G.147, F.148, T.194, R.345 Ligands: MG.12 23 PLIP interactions: 23 interactions with chain D Hydrogen bonds: D:E.58, D:K.69, D:D.101, D:S.121, D:S.121, D:G.122, D:Q.143, D:F.144, D:G.145, D:V.146, D:V.146, D:G.147, D:F.148, D:T.194, D:R.345, D:R.345 Water bridges: D:N.62, D:N.62, D:D.65, D:A.66, D:K.69, D:D.101, D:G.105

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

PO4.2: 3 residues within 4Å: Chain A: Y.274, R.364, R.367 4 PLIP interactions: 4 interactions with chain A Water bridges: A:Y.274, A:R.364 Salt bridges: A:R.364, A:R.367 PO4.5: 3 residues within 4Å: Chain B: Y.274, R.364, R.367 4 PLIP interactions: 4 interactions with chain B Water bridges: B:Y.274, B:R.364 Salt bridges: B:R.364, B:R.367 PO4.8: 3 residues within 4Å: Chain C: Y.274, R.364, R.367 4 PLIP interactions: 4 interactions with chain C Water bridges: C:R.364, C:R.367 Salt bridges: C:R.364, C:R.367 PO4.11: 3 residues within 4Å: Chain D: Y.274, R.364, R.367 4 PLIP interactions: 4 interactions with chain D Water bridges: D:R.364, D:R.367 Salt bridges: D:R.364, D:R.367

4 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: N.62 Ligands: ANP.1 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain B: N.62 Ligands: ANP.4 No protein-ligand interaction detected (PLIP) MG.9: 2 residues within 4Å: Chain C: N.62 Ligands: ANP.7 No protein-ligand interaction detected (PLIP) MG.12: 2 residues within 4Å: Chain D: N.62 Ligands: ANP.10 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lavery, L.A. et al., Structural asymmetry in the closed state of mitochondrial Hsp90 (TRAP1) supports a two-step ATP hydrolysis mechanism. Mol.Cell (2014)

Release Date

2014-01-22

Peptides

TNF receptor-associated protein 1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

TNF receptor-associated protein 1

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