SMTL ID : 1jqp.1 (2 other biounits)

dipeptidyl peptidase I (cathepsin C), a tetrameric cysteine protease of the papain family

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

8 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 2 residues within 4Å: Chain A: N.5, T.7 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.5 NAG.2: 3 residues within 4Å: Chain A: N.251 Chain B: E.208 Chain C: E.53 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.251, B:E.208 NAG.5: 2 residues within 4Å: Chain B: N.5, T.7 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.5 NAG.6: 3 residues within 4Å: Chain A: E.208 Chain B: N.251 Chain D: E.53 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.208, B:N.251 NAG.9: 2 residues within 4Å: Chain C: N.5, T.7 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.5 NAG.10: 3 residues within 4Å: Chain A: E.53 Chain C: N.251 Chain D: E.208 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:N.251, D:E.208 NAG.13: 2 residues within 4Å: Chain D: N.5, T.7 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.5 NAG.14: 3 residues within 4Å: Chain B: E.53 Chain C: E.208 Chain D: N.251 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:N.251, C:E.208

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

CL.3: 3 residues within 4Å: Chain A: R.25 Chain C: R.25 Ligands: CL.11 Ligand excluded by PLIP CL.7: 3 residues within 4Å: Chain B: R.25 Chain D: R.25 Ligands: CL.15 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain A: R.25 Chain C: R.25 Ligands: CL.3 Ligand excluded by PLIP CL.15: 3 residues within 4Å: Chain B: R.25 Chain D: R.25 Ligands: CL.7 Ligand excluded by PLIP

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

SO4.4: 3 residues within 4Å: Chain A: H.352, D.353, H.365 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.353 Salt bridges: A:H.352 SO4.8: 3 residues within 4Å: Chain B: H.352, D.353, H.365 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.353 Salt bridges: B:H.352 SO4.12: 3 residues within 4Å: Chain C: H.352, D.353, H.365 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.353 Salt bridges: C:H.352 SO4.16: 3 residues within 4Å: Chain D: H.352, D.353, H.365 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:D.353 Salt bridges: D:H.352

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Olsen, J.G. et al., Tetrameric dipeptidyl peptidase I directs substrate specificity by use of the residual pro-part domain. FEBS LETT. (2001)

Release Date

2002-10-18

Peptides

dipeptidyl peptidase I: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

dipeptidyl peptidase I

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