SMTL ID : 5gxz.1

Crystal structure of endoglucanase CelQ from Clostridium thermocellum complexed with cellobiose and cellotriose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

2 x BGC- BGC- BGC: beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose

BGC-BGC-BGC.1: 13 residues within 4Å: Chain A: F.190, H.194, S.195, E.238, W.241, C.244, W.245, D.246, D.247, W.299, R.303, Y.304, Y.414 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.238, A:D.246, A:D.247, A:D.247 BGC-BGC-BGC.3: 12 residues within 4Å: Chain B: H.194, S.195, E.238, W.241, C.244, W.245, D.246, D.247, W.299, R.303, Y.304, Y.414 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.238, B:D.246, B:D.247, B:D.247

2 x BGC- BGC: beta-D-glucopyranose-(1-4)-beta-D-glucopyranose(Non-covalent)

BGC-BGC.2: 9 residues within 4Å: Chain A: H.119, K.120, W.122, W.299, H.362, R.364, R.374, Y.405, E.409 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:H.362, A:R.364, A:R.364, A:E.409, A:E.409 Water bridges: A:H.119, A:H.119 BGC-BGC.4: 7 residues within 4Å: Chain B: H.119, K.120, H.362, R.364, R.374, Y.405, E.409 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:H.119, B:R.364, B:R.364, B:E.409, B:E.409

4 x CA: CALCIUM ION(Non-covalent)

CA.5: 5 residues within 4Å: Chain A: S.195, G.196, D.199, E.200, D.246 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.195, A:G.196, A:D.199, A:E.200, H2O.5 CA.6: 5 residues within 4Å: Chain A: D.488, E.491, D.566, N.569, D.570 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.488, A:E.491, A:D.566, A:D.570, H2O.8 CA.14: 5 residues within 4Å: Chain B: S.195, G.196, D.199, E.200, D.246 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:S.195, B:G.196, B:E.200, B:D.246, H2O.27 CA.15: 5 residues within 4Å: Chain B: D.488, E.491, D.566, N.569, D.570 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.488, B:E.491, B:D.566, B:D.570, H2O.27

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

CL.7: 1 residues within 4Å: Chain A: G.139 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain A: T.277, P.278, Q.279, K.327 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain A: Q.359, V.383 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain A: P.377, E.378 Ligand excluded by PLIP CL.17: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.18: 2 residues within 4Å: Chain B: P.377, E.378 Ligand excluded by PLIP

6 x BR: BROMIDE ION(Non-covalent)

BR.11: 2 residues within 4Å: Chain A: L.434, P.439 Ligand excluded by PLIP BR.12: 3 residues within 4Å: Chain A: E.598, V.599, G.602 Ligand excluded by PLIP BR.13: 2 residues within 4Å: Chain A: K.563, F.564 Ligand excluded by PLIP BR.16: 1 residues within 4Å: Chain B: G.139 Ligand excluded by PLIP BR.19: 2 residues within 4Å: Chain B: L.434, P.439 Ligand excluded by PLIP BR.20: 2 residues within 4Å: Chain B: E.598, V.599 Ligand excluded by PLIP

1 x 7PE: 2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL(Non-functional Binders)

7PE.21: 5 residues within 4Å: Chain B: D.103, G.105, R.166, Y.167, K.170 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.166 Water bridges: B:G.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jeng, W.Y. et al., Crystal Structures of the C-Terminally Truncated Endoglucanase Cel9Q from Clostridium thermocellum Complexed with Cellodextrins and Tris. Chembiochem (2019)

Release Date

2017-09-27

Peptides

Glucanase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glucanase

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