4D5O

Hypocrea jecorina cellobiohydrolase Cel7A E212Q soaked with xylopentaose.

• PDB DOI: https://doi.org/10.2210/pdb4D5O/pdb

• Classification: HYDROLASE
• Organism(s): Trichoderma reesei
• Expression System: Trichoderma reesei
• Mutation(s): Yes 


• Deposited: 2014-11-07 Released: 2015-03-25 
• Deposition Author(s): Momeni, M.H., Ubhayasekera, W., Stahlberg, J., Hansson, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free: 0.250 
• R-Value Work: 0.212 
• R-Value Observed: 0.214 

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 47.39 kDa 
• Atom Count: 3,967 
• Modelled Residue Count: 434 
• Deposited Residue Count: 434 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CELLULOSE 1,4-BETA-CELLOBIOSIDASE	A	434	Trichoderma reesei	Mutation(s): 1  EC: 3.2.1.176
UniProt
Find proteins for P62694 (Hypocrea jecorina) Explore P62694  Go to UniProtKB:  P62694

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-xylopyranose-(1-4)-beta-D-xylopyranose-(1-4)-beta-D-xylopyranose-(1-4)-beta-D-xylopyranose	B	4		N/A
Glycosylation Resources
GlyTouCan:  G60650FG GlyCosmos:  G60650FG

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-galactopyranose-(1-4)-beta-D-glucopyranose	C	2		N/A
Glycosylation Resources
GlyTouCan:  G84224TW GlyCosmos:  G84224TW GlyGen:  G84224TW

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	F [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
GOL	G [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-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

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 3
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900004	C	beta-lactose	Oligosaccharide / Nutrient

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free: 0.250 
• R-Value Work: 0.212 
• R-Value Observed: 0.214 
• Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.232	α = 90
b = 83.093	β = 90
c = 110.089	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
REFMAC	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-03-25 
Deposition Author(s): Momeni, M.H., Ubhayasekera, W., Stahlberg, J., Hansson, H.

Revision History  

• Version 1.0: 2015-03-25
  Type: Initial release
  
• Version 1.1: 2015-06-17
  Changes: Database references
• Version 1.2: 2018-01-17
  Changes: Data collection
• Version 2.0: 2019-01-30
  Changes: Atomic model, Data collection, Experimental preparation
• Version 2.1: 2019-02-06
  Changes: Data collection, Experimental preparation
• Version 3.0: 2020-03-11
  Changes: Data collection, Derived calculations, Other, Polymer sequence
• Version 4.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary
• Version 4.1: 2023-12-20
  Changes: Data collection, Database references, Refinement description, Structure summary