SMTL ID : 7q8k.2 (1 other biounit)

Peptide LLKVAL in complex with human cathepsin V C25S mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.74 Å

Oligo State

monomer

Ligands

1 x LEU- LEU- LYS: LLKVAL Peptide(Non-covalent)

LEU-LEU-LYS.1: 18 residues within 4Å: Chain A: Q.19, G.23, S.24, S.25, W.26, Q.63, N.66, G.67, G.68, F.69, M.70, R.72, A.136, L.162, D.163, H.164, G.165 Ligands: MPD.5 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:A.136 Hydrogen bonds: A:Q.19, A:S.25, A:S.25, A:N.66, A:G.68, A:G.68, A:D.163, A:H.164

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: F.69, M.70, A.71 Ligand excluded by PLIP

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

MPD.3: 6 residues within 4Å: Chain A: Q.19, K.20, Q.21, W.190 Ligands: MPD.4, MPD.5 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.190, A:W.190 Hydrogen bonds: A:N.18, A:K.20 Water bridges: A:Q.145 MPD.4: 5 residues within 4Å: Chain A: A.139, G.140, D.163, W.190 Ligands: MPD.3 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.139 Water bridges: A:A.139, A:Q.145 MPD.5: 6 residues within 4Å: Chain A: Q.19, K.20, C.22, W.190 Ligands: LEU-LEU-LYS.1, MPD.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.190 Water bridges: A:Q.19, A:Q.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tusar, L. et al., Proteomic data and structure analysis combined reveal interplay of structural rigidity and flexibility on selectivity of cysteine cathepsins. Commun Biol (2023)

Release Date

2022-11-23

Peptides

Cathepsin L2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
BA

Cathepsin L2

Related Entries With Identical Sequence