2V3R | pdb_00002v3r

Hypocrea jecorina Cel7A in complex with (S)-dihydroxy-phenanthrenolol

• PDB DOI: https://doi.org/10.2210/pdb2V3R/pdb

• Classification: HYDROLASE
• Organism(s): Trichoderma reesei
• Mutation(s): No 


• Deposited: 2007-06-21 Released: 2008-07-01 
• Deposition Author(s): Fagerstrom, A., Sandgren, M., Berg, U., Stahlberg, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.179 (Depositor), 0.205 (DCC) 
• R-Value Work: 
  0.134 (Depositor), 0.176 (DCC) 
• R-Value Observed: 
  0.137 (Depositor) 

Starting Model: experimental

Literature

A Study of the Chiral Recognition Mechanisms of Cellobiohydrolase Cel7A for Ligands Based on the Beta-Blocker Motif: Crystal Structures, Microcalorimetry and Computational Modelling of Cel7A-Inhibitor Complexes.

Fagerstrom, A., Liljefors, T., Stahlberg, J., Sandgren, M., Berg, U., Isaksson, R.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content 

• Total Structure Weight: 46.91 kDa 
• Atom Count: 4,143 
• Modeled Residue Count: 434 
• Deposited Residue Count: 434 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
EXOGLUCANASE 1	A	434	Trichoderma reesei	Mutation(s): 0  EC: 3.2.1.91
UniProt
Find proteins for P62694 (Hypocrea jecorina) Explore P62694  Go to UniProtKB:  P62694
Glycosylation
Glycosylation Sites: 2

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
XX7	F [auth A]	2-{[(2S)-2-HYDROXY-3-(9-PHENANTHRYLOXY)PROPYL]AMINO}PROPANE-1,3-DIOL C20 H23 N O4 WXMOCMHFWHZBSU-INIZCTEOSA-N
NAG	B [auth A], C [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
CO	D [auth A], E [auth A]	COBALT (II) ION Co XLJKHNWPARRRJB-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PCA	A	L-PEPTIDE LINKING	C5 H7 N O3		GLN

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.179 (Depositor), 0.205 (DCC) 
• R-Value Work:  0.134 (Depositor), 0.176 (DCC) 
• R-Value Observed: 0.137 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.89	α = 90
b = 82.858	β = 90
c = 110.55	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-07-01 
Deposition Author(s): Fagerstrom, A., Sandgren, M., Berg, U., Stahlberg, J.

Revision History  

• Version 1.0: 2008-07-01
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-01-17
  Changes: Data collection
• Version 1.4: 2019-01-30
  Changes: Data collection, Derived calculations, Experimental preparation
• Version 1.5: 2019-02-06
  Changes: Data collection, Experimental preparation
• Version 2.0: 2020-03-11
  Changes: Data collection, Derived calculations, Other, Polymer sequence
• Version 2.1: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 2.2: 2023-12-13
  Changes: Data collection, Database references, Refinement description, Structure summary
• Version 2.3: 2024-11-13
  Changes: Structure summary