SMTL ID : 7q8d.1 (1 other biounit)

Peptide TRESEDLE in complex with human cathepsin V C25A mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-mer

Ligands

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

MPD.1: 7 residues within 4Å: Chain A: N.18, K.20, Q.21, Q.145, W.190, W.194 Ligands: MPD.2 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.190 Hydrogen bonds: A:Q.145 MPD.2: 7 residues within 4Å: Chain A: A.139, G.140, Q.145, D.163, H.164, W.190 Ligands: MPD.1 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Water bridges: B:E.9, A:H.164 MPD.7: 5 residues within 4Å: Chain A: T.14, P.15, L.45, V.46, S.47 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:P.15, A:L.45 Hydrogen bonds: A:L.45 Water bridges: A:S.47, A:S.47

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

CL.3: 3 residues within 4Å: Chain A: F.69, M.70, A.71 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain A: R.8, N.197 Ligands: GOL.6 Ligand excluded by PLIP

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain A: G.140, H.141, S.142 No protein-ligand interaction detected (PLIP) GOL.6: 10 residues within 4Å: Chain A: R.8, Y.147, S.149, L.185, S.196, N.197, Y.199, V.200, K.201 Ligands: CL.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.8, A:R.8, A:Y.147, A:K.201, A:K.201 Water bridges: A:K.148, A:G.150

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
ASP-LEU-GLU(AMI): B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AA

B
PA

Cathepsin L2

ASP-LEU-GLU(AMI)

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