SMTL ID : 4n5d.1

Tailoring Small Molecules for an Allosteric Site on Procaspase-6: Cpd1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

homo-dimer

Ligands

1 x 2FQ: 6-amino-2,8-dimethylpyrido[2,3-d]pyrimidin-7(8H)-one(Non-covalent)

2FQ.1: 7 residues within 4Å: Chain A: N.105, Q.117, Y.178, L.180 Chain B: N.105, Y.178, L.180 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:L.180 Hydrogen bonds: A:N.105, B:N.105 pi-Stacking: A:Y.178, B:Y.178, B:Y.178

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

PO4.2: 9 residues within 4Å: Chain A: R.44, S.100, H.101, Q.141, A.142, A.143, D.173, S.198, R.200 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:S.100, A:Q.141, A:A.143, A:D.173, A:D.173, A:D.173, A:S.198 Water bridges: A:R.44, A:R.44, A:D.173 Salt bridges: A:R.44, A:H.101, A:R.200 PO4.4: 9 residues within 4Å: Chain B: R.44, S.100, H.101, Q.141, A.142, A.143, D.173, S.198, R.200 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:Q.141, B:A.143, B:D.173, B:D.173, B:D.173, B:S.198 Water bridges: B:R.44, B:R.44, B:D.173 Salt bridges: B:R.44, B:H.101, B:R.200

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 3 residues within 4Å: Chain A: H.21, A.89, K.134 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.134, A:K.134 MPD.5: 7 residues within 4Å: Chain A: Y.196, K.253 Chain B: K.124, G.125, K.136, A.184, F.186 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:K.124, B:G.125 Hydrophobic interactions: A:Y.196, A:K.253

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Murray, J. et al., Tailoring small molecules for an allosteric site on procaspase-6. Chemmedchem (2014)

Release Date

2013-12-18

Peptides

Caspase-6: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Caspase-6

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