SMTL ID : 7w7o.1

The crystal structure of human Calpain-1 protease core in complex with 14a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

monomer

Ligands

1 x 06Q: N-[(2S)-3-(4-fluorophenyl)-1-oxidanylidene-1-[[(2S,3S)-3-oxidanyl-4-oxidanylidene-1-[(3S)-2-oxidanylidenepiperidin-3-yl]-4-[(phenylmethyl)amino]butan-2-yl]amino]propan-2-yl]-1-benzofuran-2-carboxamide(Covalent)

06Q.1: 19 residues within 4Å: Chain A: Q.83, L.86, G.87, D.88, C.89, W.90, S.180, G.181, G.182, S.183, T.184, S.225, M.234, E.235, G.245, H.246, W.272, E.323 Ligands: H2S.2 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:Q.83, A:C.89, A:G.181, A:G.182, A:G.182, A:E.235, A:E.235, A:G.245, A:H.246 Water bridges: A:E.235

1 x H2S: HYDROSULFURIC ACID(Covalent)

H2S.2: 5 residues within 4Å: Chain A: C.89, W.90, H.246, A.247 Ligands: 06Q.1 No protein-ligand interaction detected (PLIP)

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 4 residues within 4Å: Chain A: V.73, G.75, D.80, E.159 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:V.73, A:G.75, A:D.80, A:E.159, H2O.6 CA.4: 5 residues within 4Å: Chain A: E.276, D.283, M.303, D.305, E.307 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.276, A:D.283, A:D.305, A:E.307, H2O.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, Y. et al., The crystal structure of human Calpain-1 protease core in complex with 14a. To Be Published

Release Date

2023-06-07

Peptides

Calpain-1 catalytic subunit: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Calpain-1 catalytic subunit