1QJW

CEL6A (Y169F) WITH A NON-HYDROLYSABLE CELLOTETRAOSE

PDB DOI: 10.2210/pdb1QJW/pdb

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

Deposited: 1999-07-06 Released: 1999-09-18
Deposition Author(s): Zou, J.-Y., Jones, T.A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.208
R-Value Work: 0.179
R-Value Observed: 0.179

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 2.0 of the entry. See complete history.

Literature

Crystallographic Evidence for Substrate Ring Distortion and Protein Conformational Changes During Catalysis in Cellobiohydrolase Cel6A from Trichoderma Reesei

Zou, J.-Y., Kleywegt, G.J., Stahlberg, J., Driguez, H., Nerinckx, W., Claeyssens, M., Koivula, A., Teeri, T.T., Jones, T.A.

(1999) Structure 7: 1035

PubMed: 10508787 Search on PubMed
DOI: 10.1016/s0969-2126(99)80171-3
Primary Citation of Related Structures:
1QJW, 1QK0, 1QK2

PubMed Abstract:

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CELLOBIOHYDROLASE CEL6A (FORMERLY CALLED CBH II)	A, B	365	Trichoderma reesei	Mutation(s): 1 Gene Names: CBH2 (Y169F), cbh2 EC: 3.2.1.91
UniProt
Find proteins for P07987 (Hypocrea jecorina) Explore P07987 Go to UniProtKB: P07987
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P07987
Protein Feature View Expand
Reference Sequence

Oligosaccharides

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Entity ID: 2
Molecule	Chains	Chain Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-4-thio-beta-D-glucopyranose-(1-4)-methyl beta-D-glucopyranoside	C, D	4	N/A	N/A	Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan: G73415XL GlyCosmos: G73415XL

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain Q [auth B] SDF format, chain E [auth A] SDF format, chain R [auth B] MOL2 format, chain F [auth A] MOL2 format, chain Q [auth B] MOL2 format, chain E [auth A] MOL2 format, chain R [auth B]	E [auth A], F [auth A], Q [auth B], R [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Ligand Interaction
MAN Query on MAN Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain H [auth A] SDF format, chain I [auth A] SDF format, chain J [auth A] SDF format, chain K [auth A] SDF format, chain L [auth A] SDF format, chain M [auth A] SDF format, chain S [auth B] SDF format, chain T [auth B] SDF format, chain U [auth B] SDF format, chain V [auth B] SDF format, chain W [auth B] SDF format, chain X [auth B] SDF format, chain Y [auth B] MOL2 format, chain G [auth A] MOL2 format, chain H [auth A] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] MOL2 format, chain K [auth A] MOL2 format, chain L [auth A] MOL2 format, chain M [auth A] MOL2 format, chain S [auth B] MOL2 format, chain T [auth B] MOL2 format, chain U [auth B] MOL2 format, chain V [auth B] MOL2 format, chain W [auth B] MOL2 format, chain X [auth B] MOL2 format, chain Y [auth B]	G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], L [auth A], M [auth A], S [auth B], T [auth B], U [auth B], V [auth B], W [auth B], X [auth B], Y [auth B]	alpha-D-mannopyranose C₆ H₁₂ O₆ WQZGKKKJIJFFOK-PQMKYFCFSA-N		Ligand Interaction
CD Query on CD Download Ideal Coordinates CCD File SDF format, chain AA [auth B] SDF format, chain N [auth A] SDF format, chain O [auth A] SDF format, chain Z [auth B] MOL2 format, chain AA [auth B] MOL2 format, chain N [auth A] MOL2 format, chain O [auth A] MOL2 format, chain Z [auth B]	AA [auth B], N [auth A], O [auth A], Z [auth B]	CADMIUM ION Cd WLZRMCYVCSSEQC-UHFFFAOYSA-N		Ligand Interaction
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain BA [auth B] SDF format, chain P [auth A] MOL2 format, chain BA [auth B] MOL2 format, chain P [auth A]	BA [auth B], P [auth A]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.208
R-Value Work: 0.179
R-Value Observed: 0.179
Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.49	α = 90
b = 74.31	β = 103.82
c = 90.71	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

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Ligand Structure Quality Assessment

Entry History

Deposition Data

Deposited Date: 1999-07-06
Released Date: 1999-09-18

Deposition Author(s):

Zou, J.-Y.

Jones, T.A.

Revision History (Full details and data files)

Version 1.0: 1999-09-18
Type: Initial release
Version 1.1: 2016-01-27
Changes: Data collection, Database references, Derived calculations, Non-polymer description, Other, Refinement description, Source and taxonomy, Structure summary, Version format compliance
Version 1.2: 2019-10-23
Changes: Author supporting evidence, Data collection, Derived calculations, Experimental preparation, Other, Structure summary
Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary