SMTL ID : 4c4d.1

Covalent glycosyl-enzyme intermediate of Hypocrea jecorina Cel7a E217Q mutant trapped using DNP-2-deoxy-2-fluoro-cellotrioside

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.32 Å

Oligo State

monomer

Ligands

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

BGC-BGC.1: 15 residues within 4Å: Chain A: Q.175, D.214, Q.217, T.226, H.228, T.246, R.251, P.258, D.259, D.262, R.267, W.376, Y.381, R.394 Ligands: G2F-BGC-BGC-BGC-BGC-BGC.2 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:D.214, A:Q.217, A:H.228, A:T.246, A:R.251, A:R.251 Water bridges: A:Q.175, A:Q.175, A:T.226, A:T.246, A:T.246

1 x G2F- BGC- BGC- BGC- BGC- BGC: beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-2-deoxy-2-fluoro-alpha-D-glucopyranose

G2F-BGC-BGC-BGC-BGC-BGC.2: 30 residues within 4Å: Chain A: N.37, W.38, R.39, W.40, N.49, Y.51, Y.82, K.102, N.103, V.104, R.107, N.141, A.143, Y.145, Y.171, D.173, S.174, Q.175, D.179, K.181, N.200, T.201, E.212, D.214, Q.217, Y.247, S.365, W.367, D.368 Ligands: BGC-BGC.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.49, A:N.49, A:N.141, A:Y.171, A:D.173, A:Q.217, A:W.367 Water bridges: A:D.52, A:S.99, A:A.100, A:Q.175 Halogen bonds: A:S.174

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

CO.3: 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.4: 2 residues within 4Å: Chain A: H.206, E.239 6 PLIP interactions: 2 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:H.206, A:E.239, H2O.15, H2O.15, H2O.15, H2O.16 CO.5: 1 residues within 4Å: Chain A: D.249 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.249, H2O.16, H2O.16, H2O.16, H2O.16

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

NAG.6: 4 residues within 4Å: Chain A: N.270, F.273, T.281, P.314 4 PLIP interactions: 4 interactions with chain A Water bridges: A:N.270, A:Q.313, A:Q.313, A:N.315 NAG.7: 2 residues within 4Å: Chain A: N.384, E.385 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.384, A:E.385

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

PEG.8: 6 residues within 4Å: Chain A: Q.293, F.294, E.295, N.301, Q.312, I.426 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.293, A:E.295, A:A.299, A:N.301, A:N.301, A:Q.312

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Knott, B.C. et al., The Mechanism of Cellulose Hydrolysis by a Two-Step, Retaining Cellobiohydrolase Elucidated by Structural and Transition Path Sampling Studies. J.Am.Chem.Soc. (2014)

Release Date

2014-01-08

Peptides

CELLULOSE 1,4-BETA-CELLOBIOSIDASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CELLULOSE 1,4-BETA-CELLOBIOSIDASE

Related Entries With Identical Sequence