SMTL ID : 7c23.1

Crystal structure of CrmE10, a SGNH-hydrolase family esterase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

7 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: D.200, R.201 Chain B: E.159 Ligands: CA.3 4 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:D.200, B:E.159, H2O.3, H2O.8 CA.2: 2 residues within 4Å: Chain A: D.200 Ligands: CA.3 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.200, H2O.2, H2O.6, H2O.6 CA.3: 4 residues within 4Å: Chain A: D.200, D.204 Ligands: CA.1, CA.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.200, A:D.200, A:D.204 CA.4: 4 residues within 4Å: Chain A: D.120, D.123 Ligands: CA.5, CA.6 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.120, A:D.120, A:D.123, H2O.5 CA.5: 2 residues within 4Å: Chain A: D.123 Ligands: CA.4 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.123, A:D.123, H2O.6 CA.6: 2 residues within 4Å: Chain A: D.120 Ligands: CA.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.120, A:D.120, H2O.5, H2O.5 CA.9: 2 residues within 4Å: Chain A: D.203, L.205 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.203, H2O.2, H2O.2, H2O.3

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.7: 10 residues within 4Å: Chain A: D.178, Q.179, L.180 Chain B: L.30, A.96, M.99, L.100, M.131, I.165 Ligands: IMD.13 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.180 ACT.10: 10 residues within 4Å: Chain A: L.30, A.96, M.99, L.100, M.131, I.165 Chain B: D.178, Q.179, L.180 Ligands: IMD.8 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.165 Hydrogen bonds: B:L.180 ACT.11: 6 residues within 4Å: Chain B: A.20, I.21, D.22, E.86, P.87, D.88 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.22

2 x IMD: IMIDAZOLE(Non-covalent)

IMD.8: 12 residues within 4Å: Chain A: D.28, S.29, L.30, S.65, G.66, D.67, A.96, N.97, L.100 Chain B: Q.179, H.181 Ligands: ACT.10 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Q.179, B:H.181, A:S.29, A:G.66, A:N.97 IMD.13: 11 residues within 4Å: Chain A: Q.179, H.181 Chain B: D.28, S.29, L.30, S.65, G.66, A.96, N.97, L.100 Ligands: ACT.7 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.29, B:G.66, B:N.97, A:Q.179, A:H.181

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

EDO.12: 10 residues within 4Å: Chain A: V.175, Q.176, Q.177, Q.179, L.180 Chain B: V.175, Q.176, Q.177, Q.179, L.180 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:Q.179 Water bridges: B:D.178, A:Q.179

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Z. et al., Structure-guided protein engineering increases enzymatic activities of the SGNH family esterases. Biotechnol Biofuels (2020)

Release Date

2020-05-20

Peptides

Carboxylesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Carboxylesterase