SMTL ID : 6vjb.1

Crystal structure of a catalytically inactive CXC Chemokine-degrading protease SpyCEP from Streptococcus pyogenes

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.24 Å

Oligo State

monomer

Ligands

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 8 residues within 4Å: Chain A: R.393, Y.413, S.425, L.426, G.427, F.529, D.530, S.531 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.393, A:G.427 EDO.2: 10 residues within 4Å: Chain A: Q.897, Y.967, V.970, V.971, G.972, A.973, Q.1462, T.1464, V.1533, E.1535 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.897, A:G.972, A:E.1535 EDO.3: 2 residues within 4Å: Chain A: G.523, T.524 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.523 Water bridges: A:T.524, A:T.524 EDO.4: 8 residues within 4Å: Chain A: D.925, K.926, N.927, F.928, N.929, F.934, A.935, T.938 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.928, A:N.929 Water bridges: A:D.925

3 x CA: CALCIUM ION(Non-covalent)

CA.5: 6 residues within 4Å: Chain A: S.1158, N.1160, D.1162, N.1164, K.1165, D.1166 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.1158, A:D.1162, A:N.1164, A:D.1166, H2O.4 CA.6: 5 residues within 4Å: Chain A: S.876, N.878, D.880, N.882, D.884 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:S.876, A:S.876, A:D.880, A:N.882, A:D.884 CA.7: 5 residues within 4Å: Chain A: D.985, Q.987, D.1010, R.1011, D.1078 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.985, A:D.1010, A:D.1010, A:R.1011, A:D.1078

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McKenna, S. et al., Structure, dynamics and immunogenicity of a catalytically inactive CXC chemokine-degrading protease SpyCEP from Streptococcus pyogenes. Comput Struct Biotechnol J (2020)

Release Date

2020-04-15

Peptides

Putative cell envelope proteinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Putative cell envelope proteinase