3ZI7

STRUCTURE OF FAE SOLVED BY SAD FROM DATA COLLECTED BY DIRECT DATA COLLECTION (DDC) USING THE GROB ROBOT GONIOMETER

• PDB DOI: https://doi.org/10.2210/pdb3ZI7/pdb

• Classification: HYDROLASE
• Organism(s): Acetivibrio thermocellus YS
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2013-01-04 Released: 2013-05-01 
• Deposition Author(s): Bowler, M.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.160 
• R-Value Work: 0.123 
• R-Value Observed: 0.124 

Literature

Recent Progress in Robot-Based Systems for Crystallography and Their Contribution to Drug Discovery.

Ferrer, J.L., Larive, N.A., Bowler, M.W., Nurizzo, D.

(2013) Expert Opin Drug Discov 8: 835

• PubMed: 23656378 
• DOI: https://doi.org/10.1517/17460441.2013.793666
• Primary Citation of Related Structures:  
  3ZI6, 3ZI7


• PubMed Abstract: 
  

  X-ray crystallography is the main tool for macromolecular structure solution at atomic resolution. It provides key information for the understanding of protein function, opening opportunities for the modulation of enzymatic mechanisms, and protein-ligand interactions. As a consequence, macromolecular crystallography plays an essential role in drug design, as well as in the a posteriori validation of drug mechanisms.

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Organizational Affiliation: 

Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), Centre National de la Recherche Scientifique (CNRS), Université Joseph Fourier (UJF), Institut de Biologie Structurale Jean-Pierre Ebel (IBS), F-38027 Grenoble Cedex 1, France. [e-mail]

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 69.88 kDa 
• Atom Count: 5,413 
• Modelled Residue Count: 566 
• Deposited Residue Count: 594 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ENDO-1,4-BETA-XYLANASE Y	A, B	297	Acetivibrio thermocellus YS	Mutation(s): 0  EC: 3.2.1.8
UniProt
Find proteins for P51584 (Acetivibrio thermocellus) Explore P51584  Go to UniProtKB:  P51584

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CD	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth B], J [auth B], K [auth B], L [auth B], M [auth B], N [auth B]	CADMIUM ION Cd WLZRMCYVCSSEQC-UHFFFAOYSA-N

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET
SEP	A, B	L-PEPTIDE LINKING	C3 H8 N O6 P		SER

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.160 
• R-Value Work: 0.123 
• R-Value Observed: 0.124 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.609	α = 90
b = 108.639	β = 90
c = 113.317	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-05-01 
Deposition Author(s): Bowler, M.W.

Revision History  

• Version 1.0: 2013-05-01
  Type: Initial release
  
• Version 1.1: 2013-05-22
  Changes: Database references, Refinement description
• Version 1.2: 2013-07-03
  Changes: Database references