SMTL ID : 4zyb.4 (3 other biounits)

High resolution structure of M23 peptidase LytM with substrate analogue

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.28, D.32, H.111 Ligands: 4SQ.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.28, A:D.32, A:D.32, A:H.111

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 1 residues within 4Å: Chain A: G.103 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.103, H2O.2

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

CL.3: 3 residues within 4Å: Chain A: Q.17, H.23, G.24 Ligand excluded by PLIP

1 x 4SQ: tetraglycine phosphinate(Non-covalent)

4SQ.4: 13 residues within 4Å: Chain A: Y.22, H.28, D.32, Y.57, G.58, G.59, M.77, H.78, N.104, H.109, H.111, N.121 Ligands: ZN.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.22, A:Y.22, A:N.104, A:N.121 Water bridges: A:H.111

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grabowska, M. et al., High resolution structure of an M23 peptidase with a substrate analogue. Sci Rep (2015)

Release Date

2015-10-21

Peptides

Glycyl-glycine endopeptidase LytM: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Glycyl-glycine endopeptidase LytM

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