SMTL ID : 5ac3.1

Crystal structure of PAM12A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

9 x CD: CADMIUM ION(Non-covalent)

CD.1: 1 residues within 4Å: Chain A: D.124 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.124, A:D.124, H2O.5, H2O.5 CD.2: 2 residues within 4Å: Chain A: H.413 Ligands: ACY.13 5 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:H.413, H2O.9, H2O.12, H2O.13, ACY.13 CD.3: 2 residues within 4Å: Chain A: H.54 Ligands: ACY.14 5 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:H.54, H2O.2, H2O.3, H2O.13, ACY.14 CD.4: 2 residues within 4Å: Chain A: H.165 Ligands: CD.5 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.165, H2O.12 CD.5: 3 residues within 4Å: Chain A: H.165, P.428 Ligands: CD.4 No protein-ligand interaction detected (PLIP) CD.6: 1 residues within 4Å: Chain A: E.299 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.299, A:E.299 CD.7: 4 residues within 4Å: Chain A: E.66, E.69, R.70 Ligands: ACY.11 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.66, A:E.66, A:E.69, H2O.3 CD.8: 1 residues within 4Å: Chain A: H.363 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.363, H2O.11, H2O.11, H2O.11 CD.9: 1 residues within 4Å: Chain A: H.346 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.346, H2O.5

5 x ACY: ACETIC ACID(Non-functional Binders)

ACY.10: 5 residues within 4Å: Chain A: A.383, G.384, L.385, A.386, D.387 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.386 ACY.11: 6 residues within 4Å: Chain A: E.66, E.69, R.70, R.80, R.123 Ligands: CD.7 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.70 Salt bridges: A:R.70 ACY.12: 6 residues within 4Å: Chain A: N.140, G.169, S.170, D.192, G.193, S.194 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.140 Water bridges: A:S.148, A:G.169 ACY.13: 5 residues within 4Å: Chain A: P.314, V.315, E.316, H.413 Ligands: CD.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.316 Hydrogen bonds: A:E.316 Salt bridges: A:H.413 ACY.14: 6 residues within 4Å: Chain A: R.48, H.54, R.153, G.154, G.155 Ligands: CD.3 3 PLIP interactions: 3 interactions with chain A Water bridges: A:Q.156 Salt bridges: A:R.48, A:H.54

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, B. et al., Versatile Peptide C-Terminal Functionalization Via a Computationally Peptide Amidase. Acs Catalysis (2016)

Release Date

2016-07-20

Peptides

PEPTIDE AMIDASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PEPTIDE AMIDASE