SMTL ID : 7m6u.2 (1 other biounit)

Crystal structure of a circular permutation and computationally designed pro-enzyme of carboxypeptidase G2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.59 Å

Oligo State

homo-dimer

Ligands

9 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: D.76, E.110, E.111, H.320 Ligands: ZN.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.76, A:E.111, A:E.111, A:H.320, H2O.1 ZN.2: 6 residues within 4Å: Chain A: H.47, D.76, E.110, E.111, E.135 Ligands: ZN.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.47, A:D.76, A:E.135, A:E.135, H2O.1 ZN.3: 2 residues within 4Å: Chain A: H.164, N.210 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.164, H2O.2, H2O.2 ZN.4: 2 residues within 4Å: Chain A: K.54, D.389 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.389, H2O.1 ZN.5: 1 residues within 4Å: Chain A: E.289 No protein-ligand interaction detected (PLIP) ZN.6: 5 residues within 4Å: Chain B: D.76, E.110, E.111, H.320 Ligands: ZN.7 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.76, B:E.111, B:E.111, B:H.320 ZN.7: 6 residues within 4Å: Chain B: H.47, D.76, E.110, E.111, E.135 Ligands: ZN.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.47, B:D.76, B:E.135, B:E.135 ZN.8: 2 residues within 4Å: Chain B: H.164, N.210 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.164, H2O.2, H2O.3 ZN.9: 2 residues within 4Å: Chain B: E.384, D.389 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.389, B:D.389, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yachnin, B.J. et al., Massively parallel, computationally guided design of a proenzyme. Proc.Natl.Acad.Sci.USA (2022)

Release Date

2021-04-14

Peptides

Carboxypeptidase G2 circular permuation pro-domain fusion: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Carboxypeptidase G2 circular permuation pro-domain fusion

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