SMTL ID : 3hd3.1 (1 other biounit)

High resolution crystal structure of cruzain bound to the vinyl sulfone inhibitor SMDC-256047

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x 25B: (1R,2R)-2-[(4-chlorophenyl)carbonyl]-N-{(1S)-1-[2-(phenylsulfonyl)ethyl]pentyl}cyclohexanecarboxamide(Covalent)

25B.1: 17 residues within 4Å: Chain A: Q.19, G.23, C.25, W.26, S.61, S.64, G.65, G.66, L.67, A.138, A.141, M.145, D.161, H.162, G.163, W.184 Ligands: PEG.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.67, A:A.138, A:A.141, A:H.162 Hydrogen bonds: A:G.66, A:D.161 pi-Stacking: A:W.184

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 5 residues within 4Å: Chain A: V.54, S.55, K.58, S.98, P.99 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.58, A:P.99 Water bridges: A:L.53, A:D.57, A:G.62, A:G.62

1 x EOH: ETHANOL(Non-functional Binders)

EOH.3: 5 residues within 4Å: Chain A: D.18, Q.19, G.20, W.184 Ligands: PEG.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.20

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 5 residues within 4Å: Chain A: G.20, Q.21, W.184 Ligands: 25B.1, EOH.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.19, A:W.184

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

SO4.5: 4 residues within 4Å: Chain A: C.101, T.102, T.103, S.104 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.103, A:T.103, A:S.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bryant, C. et al., Novel non-peptidic vinylsulfones targeting the S2 and S3 subsites of parasite cysteine proteases. Bioorg.Med.Chem.Lett. (2009)

Release Date

2009-10-06

Peptides

Cruzipain: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cruzipain

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