SMTL ID : 4v0z.1

o-nitrophenyl Cellobioside as an Active Site Probe for Family 7 Cellobiohydrolases

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

BGC-BGC.1: 2 residues within 4Å: Chain A: K.286 Ligands: OPO.7 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.286 BGC-BGC.2: 15 residues within 4Å: Chain A: Q.175, D.214, E.217, T.226, H.228, T.246, R.251, P.258, D.259, D.262, R.267, W.376, Y.381, R.394 Ligands: OPO.8 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:E.217, A:H.228, A:T.246, A:T.246, A:R.251, A:R.251 Water bridges: A:T.226, A:T.226

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 4 residues within 4Å: Chain A: N.270, F.273, T.281, P.314 5 PLIP interactions: 5 interactions with chain A Water bridges: A:N.270, A:N.270, A:S.272, A:S.272, A:Q.313

2 x CO: COBALT (II) ION(Non-covalent)

CO.4: 2 residues within 4Å: Chain A: E.295, E.325 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.295, A:E.295, A:E.325 CO.5: 2 residues within 4Å: Chain A: H.206, E.239 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.206, A:E.239, H2O.11, H2O.12, H2O.12

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 5 residues within 4Å: Chain A: S.297, G.298, D.328, L.349, T.350 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.297, A:T.350

2 x OPO: O-NITROPHENOL(Non-covalent)

OPO.7: 2 residues within 4Å: Chain A: D.307 Ligands: BGC-BGC.1 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:D.307 OPO.8: 7 residues within 4Å: Chain A: R.267, F.338, G.339, Y.381, P.382, R.394 Ligands: BGC-BGC.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.394 Water bridges: A:Y.252

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.9: 3 residues within 4Å: Chain A: N.37, W.38, N.200 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.37 Water bridges: A:D.179, A:D.179, A:K.181, A:N.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Haataja, T. et al., Enzyme kinetics by GH7 cellobiohydrolases on chromogenic substrates is dictated by non-productive binding: insights from crystal structures and MD simulation. Febs J. (2022)

Release Date

2015-09-30

Peptides

CELLOBIOHYDROLASE CEL7A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CELLOBIOHYDROLASE CEL7A