SMTL ID : 2c2m.1

Crystal structures of caspase-3 in complex with aza-peptide Michael acceptor inhibitors.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

hetero-2-2-mer

Ligands

2 x PHQ- ASP- GLU- VAL- MX4: AZA-PEPTIDE INHIBITOR (5S, 8R, 11S)-14-[4-(BENZYLOXY)-4-OXOBUTANOYL]-8-(2-CARBOXYETHYL)-5-(CARBOXYMETHYL)-11-(1-METHYLETHYL)-3,6,9,12-TETRAOXO-1-PHENYL-2-OXA-4,7,10,13,14 -PENTAAZAHEXADECAN-16-OIC ACID(Non-covalent)

PHQ-ASP-GLU-VAL-MX4.1: 22 residues within 4Å: Chain A: S.35, R.36, S.37, S.92, H.93, G.94, Q.133, A.134, C.135 Chain B: Y.30, S.31, W.32, R.33, N.34, S.35, W.40, S.75, F.76, F.78, F.82 Chain D: V.4, D.5 28 PLIP interactions: 7 interactions with chain A, 20 interactions with chain B, 1 interactions with chain D Hydrogen bonds: A:S.37, A:G.94, A:Q.133, A:C.135, B:S.31, B:R.33, B:R.33, B:R.33, B:N.34, B:S.35, B:F.76, B:F.76, B:F.76, D:D.5 Salt bridges: A:R.36, A:H.93, A:H.93, B:R.33, B:R.33 Hydrophobic interactions: B:Y.30, B:W.32, B:W.32, B:F.76, B:F.76, B:F.78, B:F.82 Water bridges: B:S.35, B:K.36 PHQ-ASP-GLU-VAL-MX4.2: 22 residues within 4Å: Chain B: V.4, D.5 Chain C: S.35, R.36, S.37, S.92, H.93, G.94, Q.133, A.134, C.135 Chain D: Y.30, S.31, W.32, R.33, N.34, S.35, W.40, S.75, F.76, F.78, F.82 27 PLIP interactions: 7 interactions with chain C, 20 interactions with chain D Hydrogen bonds: C:S.37, C:G.94, C:Q.133, C:C.135, D:S.31, D:R.33, D:R.33, D:R.33, D:R.33, D:N.34, D:S.35, D:F.76, D:F.76 Salt bridges: C:R.36, C:H.93, C:H.93, D:R.33, D:R.33 Hydrophobic interactions: D:Y.30, D:W.32, D:W.32, D:F.76, D:F.76, D:F.78, D:F.82 Water bridges: D:S.35, D:K.36

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ekici, O.D. et al., Design, Synthesis, and Evaluation of Aza-Peptide Michael Acceptors as Selective and Potent Inhibitors of Caspases-2, -3, -6, -7, -8, -9, and - 10. J.Med.Chem. (2006)

Release Date

2006-09-20

Peptides

CASPASE-3 SUBUNIT P17: AC
CASPASE-3 SUBUNIT P12: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

CASPASE-3 SUBUNIT P17

CASPASE-3 SUBUNIT P12

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