SMTL ID : 7rne.1

Crystal structure of caspase-3 with inhibitor Ac-YKPVD-CHO

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.73 Å

Oligo State

hetero-2-2-mer

Ligands

2 x PRO- VAL- ASA: Ac-YKPVD-CHO(Non-covalent)

PRO-VAL-ASA.1: 11 residues within 4Å: Chain A: R.31, S.87, H.88, G.89, Q.128, A.129, C.130 Chain B: Y.21, S.22, W.23, R.24 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:Y.21, B:Y.21 Hydrogen bonds: B:S.22, B:R.24, B:R.24, A:G.89, A:Q.128, A:C.130 Salt bridges: B:R.24, A:R.31 PRO-VAL-ASA.2: 10 residues within 4Å: Chain C: R.31, S.87, H.88, G.89, Q.128, C.130 Chain D: Y.21, S.22, W.23, R.24 10 PLIP interactions: 6 interactions with chain C, 4 interactions with chain D Hydrogen bonds: C:H.88, C:G.89, C:Q.128, C:C.130, D:S.22, D:R.24, D:R.24 Salt bridges: C:R.31, C:H.88, D:R.24

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bresinsky, M. et al., Structure-Based Design and Biological Evaluation of Novel Caspase-2 Inhibitors Based on the Peptide AcVDVAD-CHO and the Caspase-2-Mediated Tau Cleavage Sequence YKPVD314. Acs Pharmacol Transl Sci (2022)

Release Date

2022-01-05

Peptides

Caspase-3 subunit p17: AC
Caspase-3 subunit p12: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Caspase-3 subunit p17

Caspase-3 subunit p12

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