SMTL ID : 6ql8.1

Cathepsin-K in complex with MIV-711

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x J5N: ~{N}-[(2~{S})-1-[(3~{R},3~{a}~{R},6~{R},6~{a}~{R})-6-ethynyl-3-oxidanyl-2,3,3~{a},5,6,6~{a}-hexahydrofuro[3,2-b]pyrrol-4-yl]-4-methyl-1-oxidanylidene-pentan-2-yl]-4-[5-fluoranyl-2-(4-methylpiperazin-1-yl)-1,3-thiazol-4-yl]benzamide(Covalent)

J5N.1: 21 residues within 4Å: Chain A: Q.21, G.25, S.26, C.27, W.28, S.60, E.61, N.62, D.63, G.66, G.67, G.68, Y.69, M.70, N.72, A.136, L.162, N.163, H.164 Ligands: NO3.3, NO3.6 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:D.63, A:A.136, A:L.162 Hydrogen bonds: A:Q.21, A:C.27, A:G.68, A:G.68 Salt bridges: A:D.63 pi-Stacking: A:Y.69

6 x NO3: NITRATE ION(Non-functional Binders)

NO3.2: 6 residues within 4Å: Chain A: R.2, K.124, K.178, R.200, N.201 Ligands: NO3.4 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.2, A:K.178, A:R.200, A:R.200, A:N.201 Water bridges: A:K.124, A:K.124, A:N.201 NO3.3: 3 residues within 4Å: Chain A: L.162, N.163 Ligands: J5N.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.162 NO3.4: 6 residues within 4Å: Chain A: R.2, A.3, K.121, K.124, R.125 Ligands: NO3.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.3, A:K.121, A:K.124, A:R.125 Water bridges: A:R.2 NO3.5: 6 residues within 4Å: Chain A: C.58, V.59, S.60, E.61, Y.76, K.79 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.60, A:E.61 Water bridges: A:C.58, A:Y.76 NO3.6: 7 residues within 4Å: Chain A: Q.21, G.22, C.24, G.25, H.164, W.186 Ligands: J5N.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.21, A:W.186 NO3.7: 5 residues within 4Å: Chain A: R.10, N.192, Y.195, I.196, L.197 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.10, A:R.10, A:N.192, A:Y.195 Water bridges: A:Y.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Derbyshire, D.J., Successful development of 3-oxohexahydrofuropyrrole amino acid amides as inhibitors of Cathepsin-K. To Be Published

Release Date

2020-02-19

Peptides

Cathepsin K: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cathepsin K

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