SMTL ID : 3n2z.1

The Structure of Human Prolylcarboxypeptidase at 2.80 Angstroms Resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.79 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 8 residues within 4Å: Chain A: H.217, F.283, N.287, N.291, G.294, V.296, K.297, C.298 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 8 residues within 4Å: Chain B: H.217, F.283, N.287, N.291, G.294, V.296, K.297, C.298 No protein-ligand interaction detected (PLIP)

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

NAG.2: 3 residues within 4Å: Chain A: I.52, W.53, N.56 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.56 NAG.3: 3 residues within 4Å: Chain A: N.270, P.271, N.272 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.272 NAG.4: 3 residues within 4Å: Chain A: C.219, N.300, S.302 No protein-ligand interaction detected (PLIP) NAG.5: 6 residues within 4Å: Chain A: K.369, N.370 Chain B: K.117, E.124, N.125, F.443 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.443 NAG.8: 3 residues within 4Å: Chain B: I.52, W.53, N.56 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.56 NAG.9: 3 residues within 4Å: Chain B: N.270, P.271, N.272 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.272 NAG.10: 3 residues within 4Å: Chain B: C.219, N.300, S.302 No protein-ligand interaction detected (PLIP) NAG.11: 6 residues within 4Å: Chain A: K.117, E.124, N.125, F.443 Chain B: K.369, N.370 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.443

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

SO4.6: 5 residues within 4Å: Chain A: R.358, P.359, S.360, W.361 Chain B: K.11 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Salt bridges: B:K.11 Hydrogen bonds: A:S.360, A:S.360, A:W.361 SO4.12: 5 residues within 4Å: Chain A: K.11 Chain B: R.358, P.359, S.360, W.361 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Salt bridges: A:K.11 Hydrogen bonds: B:S.360, B:S.360, B:W.361

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Soisson, S.M. et al., Structural definition and substrate specificity of the S28 protease family: the crystal structure of human prolylcarboxypeptidase. Bmc Struct.Biol. (2010)

Release Date

2010-07-07

Peptides

Lysosomal Pro-X carboxypeptidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

Lysosomal Pro-X carboxypeptidase