SMTL ID : 7n1r.2 (1 other biounit)

A novel and unique ATP hydrolysis to AMP by a human Hsp70 BiP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

monomer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: G.364, I.365, N.366, E.369, Y.373 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.364, A:N.366, A:E.369 GOL.4: 2 residues within 4Å: Chain A: R.416 Ligands: GOL.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.416, A:R.416 Water bridges: A:T.400, A:E.442 GOL.5: 4 residues within 4Å: Chain A: K.412, E.442, P.444 Ligands: GOL.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.412, A:E.442 GOL.6: 2 residues within 4Å: Chain A: K.330, N.357 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.357 Water bridges: A:K.330

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 2 residues within 4Å: Chain A: E.268, K.271 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.271 SO4.7: 4 residues within 4Å: Chain A: D.254, K.257, Y.290, E.291 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.290 Water bridges: A:K.257, A:E.291 Salt bridges: A:K.253, A:K.257 SO4.8: 4 residues within 4Å: Chain A: S.278, Q.279, H.280, Q.281 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.279, A:H.280, A:Q.281 Salt bridges: A:H.280 SO4.9: 4 residues within 4Å: Chain A: H.242, K.303, E.306, L.307 6 PLIP interactions: 6 interactions with chain A Water bridges: A:H.242, A:H.242, A:K.303 Salt bridges: A:H.242, A:K.245, A:K.303

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 7 residues within 4Å: Chain A: G.13, T.14, T.15, Y.16, G.204 Ligands: AMP.15, PO4.16 1 PLIP interactions: 1 Ligand-Ligand interactions Metal complexes: AMP.15

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

PO4.10: 6 residues within 4Å: Chain A: D.71, R.74, D.88, F.91, E.233, D.234 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.233 Water bridges: A:R.74, A:R.74 Salt bridges: A:R.74 PO4.11: 5 residues within 4Å: Chain A: E.2, V.4, H.144, N.171, M.173 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.171 Water bridges: A:N.171 Salt bridges: A:H.144 PO4.12: 2 residues within 4Å: Chain A: Q.159, K.162 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.159 Water bridges: A:D.163 Salt bridges: A:K.162 PO4.13: 5 residues within 4Å: Chain A: Y.186, K.190, E.335, S.362, R.363 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.335, A:R.363 Water bridges: A:K.190, A:K.190 Salt bridges: A:K.190 PO4.14: 2 residues within 4Å: Chain A: I.532, R.535 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.531, A:Q.582 Salt bridges: A:R.535 PO4.16: 10 residues within 4Å: Chain A: G.13, T.14, K.73, E.178, G.203, G.204, G.205, T.206 Ligands: MG.3, AMP.15 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:T.14, A:G.203, A:G.204, A:G.205, A:T.206, A:T.206, A:T.206 Water bridges: A:K.73, A:K.73, A:E.178 Salt bridges: A:K.73

1 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.15: 18 residues within 4Å: Chain A: T.15, Y.16, G.203, G.204, G.232, E.270, K.273, R.274, S.277, G.340, G.341, S.342, R.344, I.345, P.367, D.368 Ligands: MG.3, PO4.16 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:Y.16, A:G.203, A:E.270, A:K.273, A:R.274, A:R.274, A:S.277, A:G.341, A:R.344, A:P.367 Water bridges: A:T.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, H. et al., A novel and unique ATP hydrolysis to AMP by a human Hsp70 Binding immunoglobin protein (BiP). Protein Sci. (2022)

Release Date

2022-01-12

Peptides

Endoplasmic reticulum chaperone BiP: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Endoplasmic reticulum chaperone BiP

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