SMTL ID : 3kjf.1

Caspase 3 Bound to a covalent inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-oligomer

Ligands

2 x B92: (3S)-3-({[(5S,10AS)-2-{(2S)-4-CARBOXY-2-[(PHENYLACETYL)AMINO]BUTYL}-1,3-DIOXO-2,3,5,7,8,9,10,10A-OCTAHYDRO-1H-[1,2,4]TRIAZOLO[1,2-A]CINNOLIN-5-YL]CARBONYL}AMINO)-4-OXOPENTANOIC ACID(Covalent)

B92.1: 16 residues within 4Å: Chain A: R.36, S.92, H.93, G.94, Q.133, C.135 Chain B: Y.29, S.30, W.31, R.32, N.33, S.34, W.39, F.75, F.81 Chain D: D.4 20 PLIP interactions: 1 interactions with chain D, 14 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: D:D.4, B:Y.29, B:Y.29, B:W.31, B:W.31, B:W.31, B:W.39, B:F.81 Hydrogen bonds: B:S.30, B:R.32, B:R.32, B:R.32, B:S.34, A:G.94, A:Q.133, A:C.135 Water bridges: B:N.33 Salt bridges: B:R.32, A:R.36, A:H.93 B92.2: 16 residues within 4Å: Chain B: D.4 Chain C: R.36, S.92, H.93, G.94, Q.133, C.135 Chain D: Y.29, S.30, W.31, R.32, N.33, S.34, W.39, F.75, F.81 20 PLIP interactions: 5 interactions with chain C, 14 interactions with chain D, 1 interactions with chain B Hydrogen bonds: C:G.94, C:Q.133, C:C.135, D:S.30, D:R.32, D:R.32, D:R.32, D:S.34 Salt bridges: C:R.36, C:H.93, D:R.32 Hydrophobic interactions: D:Y.29, D:Y.29, D:W.31, D:W.31, D:W.31, D:W.39, D:F.81, B:D.4 Water bridges: D:N.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Z. et al., Kinetic and structural characterization of caspase-3 and caspase-8 inhibition by a novel class of irreversible inhibitors. Biochim.Biophys.Acta (2010)

Release Date

2010-08-11

Peptides

Caspase-3: AC
Caspase-3: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Caspase-3

Caspase-3

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