SMTL ID : 3kjn.1

Caspase 8 bound to a covalent inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-oligomer

Ligands

2 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.1: 10 residues within 4Å: Chain A: Y.124, T.127, S.128, T.131 Chain B: E.12, F.15, T.83, F.84, T.85 Chain D: Q.81 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.12 DTT.3: 10 residues within 4Å: Chain B: Q.81 Chain C: Y.124, T.127, S.128, T.131 Chain D: E.12, F.15, T.83, F.84, T.85 2 PLIP interactions: 2 interactions with chain C Water bridges: C:Y.124, C:T.127

2 x B93: (3S)-3-({[(5S)-2-{2-[(1H-BENZIMIDAZOL-5-YLCARBONYL)AMINO]ETHYL}-7-(CYCLOHEXYLMETHYL)-1,3-DIOXO-2,3,5,8-TETRAHYDRO-1H-[1,2,4]TRIAZOLO[1,2-A]PYRIDAZIN-5-YL]CARBONYL}AMINO)-4-OXOPENTANOIC ACID(Covalent)

B93.2: 15 residues within 4Å: Chain A: R.50, S.106, H.107, G.108, Q.148, C.150, Y.155 Chain B: V.26, S.27, Y.28, R.29, N.30, P.31, T.35, W.36 13 PLIP interactions: 6 interactions with chain A, 7 interactions with chain B Hydrogen bonds: A:H.107, A:G.108, A:Q.148, A:C.150, B:S.27, B:R.29, B:R.29, B:R.29 Salt bridges: A:R.50, A:H.107, B:R.29 Hydrophobic interactions: B:V.26 Water bridges: B:R.29 B93.4: 15 residues within 4Å: Chain C: R.50, S.106, H.107, G.108, Q.148, C.150, Y.155 Chain D: V.26, S.27, Y.28, R.29, N.30, P.31, T.35, W.36 12 PLIP interactions: 5 interactions with chain C, 7 interactions with chain D Hydrogen bonds: C:G.108, C:Q.148, C:C.150, D:S.27, D:R.29, D:R.29, D:R.29 Salt bridges: C:R.50, C:H.107, D:R.29 Hydrophobic interactions: D:V.26 Water bridges: D:R.29

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-8: AC
Caspase-8: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Caspase-8

Caspase-8

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