SMTL ID : 7f4z.1

X-ray crystal structure of Y149A mutated Hsp72-NBD in complex with ADP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

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

ADP.1: 19 residues within 4Å: Chain A: G.10, T.11, T.12, Y.13, G.199, G.200, G.228, K.269, R.270, S.273, G.336, G.337, S.338, R.340, I.341, D.364 Ligands: MG.2, K.4, PO4.5 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:T.12, A:T.12, A:Y.13, A:G.200, A:G.201, A:K.269, A:S.273, A:S.273, A:G.337, A:R.340 Water bridges: A:D.8, A:T.12, A:Y.13, A:Y.13, A:E.266, A:E.266, A:E.266, A:R.270

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 3 residues within 4Å: Ligands: ADP.1, K.4, PO4.5 No protein-ligand interaction detected (PLIP)

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 4 residues within 4Å: Chain A: N.29, D.30, Q.31, K.124 Ligand excluded by PLIP

1 x K: POTASSIUM ION(Non-covalent)

K.4: 5 residues within 4Å: Chain A: D.8, G.10, Y.13 Ligands: ADP.1, MG.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.8, A:Y.13, H2O.2, H2O.5

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

PO4.5: 8 residues within 4Å: Chain A: G.10, T.11, K.69, P.145, E.173, T.202 Ligands: ADP.1, MG.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:T.11, A:T.11, A:T.11, A:T.202 Water bridges: A:D.197, A:G.200, A:T.202 Salt bridges: A:K.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yokoyama, T. et al., Neutron crystallographic analysis of the nucleotide-binding domain of Hsp72 in complex with ADP. Iucrj (2022)

Release Date

2022-06-29

Peptides

Heat shock 70 kDa protein 1B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Heat shock 70 kDa protein 1B

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