SMTL ID : 6f6r.1 (1 other biounit)

Crystal structure of human Caspase-1 with N-{3-[1-((S)-2-Hydroxy-5-oxo-tetrahydro-furan-3-ylcarbamoyl)-ethyl]-1-methyl-2,4-dioxo-1,2,3,4-tetrahydro-pyrimidin-5-yl}-4-(quinoxalin-2-ylamino)-benzamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-2-2-mer

Ligands

2 x CVE: (3~{S})-3-[[(2~{R})-2-[3-methyl-2,6-bis(oxidanylidene)-5-[[4-(quinoxalin-2-ylamino)phenyl]carbonylamino]pyrimidin-1-yl]propanoyl]amino]-4-oxidanyl-butanoic acid(Covalent)

CVE.1: 17 residues within 4Å: Chain A: R.62, S.119, H.120, G.121, Q.166, A.167, C.168 Chain B: V.22, S.23, W.24, R.25, H.26, M.29, G.30, S.31, V.32, R.67 17 PLIP interactions: 12 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:V.22, B:W.24, B:R.25, B:H.26, B:M.29 Hydrogen bonds: B:S.23, B:R.25, B:R.25, A:G.121, A:Q.166, A:C.168 Water bridges: B:R.25, B:R.67 Salt bridges: B:R.25, A:R.62, A:H.120 pi-Stacking: B:H.26 CVE.3: 17 residues within 4Å: Chain C: R.62, S.119, H.120, G.121, Q.166, A.167, C.168 Chain D: V.22, S.23, W.24, R.25, H.26, M.29, G.30, S.31, V.32, R.67 17 PLIP interactions: 12 interactions with chain D, 5 interactions with chain C Hydrophobic interactions: D:V.22, D:W.24, D:R.25, D:H.26, D:M.29 Hydrogen bonds: D:S.23, D:R.25, D:R.25, C:G.121, C:Q.166, C:C.168 Water bridges: D:R.25, D:R.67 Salt bridges: D:R.25, C:R.62, C:H.120 pi-Stacking: D:H.26

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 5 residues within 4Å: Chain A: I.122, R.123, G.125, C.168, R.169 6 PLIP interactions: 6 interactions with chain A Water bridges: A:L.141, A:R.169, A:R.169, A:R.169, A:R.169 Salt bridges: A:R.169 SO4.4: 5 residues within 4Å: Chain C: I.122, R.123, G.125, C.168, R.169 6 PLIP interactions: 6 interactions with chain C Water bridges: C:L.141, C:R.169, C:R.169, C:R.169, C:R.169 Salt bridges: C:R.169

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fournier, J.F. et al., Rational Drug Design of Topically Administered Caspase 1 Inhibitors for the Treatment of Inflammatory Acne. J. Med. Chem. (2018)

Release Date

2018-05-02

Peptides

Caspase-1: AC
Caspase-1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Caspase-1

Caspase-1

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