X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.5
Temperature 293.0
Details 0.1 M sodium acetate, 0.2 M zinc acetate, 9% PEG 3000, pH 4.5, VAPOR DIFFUSION, SITTING DROP, temperature 293.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 75.84 α = 90
b = 75.84 β = 90
c = 303.49 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD multilayer mirrors 2013-02-01
Diffraction Radiation
Monochromator Protocol
Double crystal monochromator, Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
synchrotron MAX II BEAMLINE I911-3 1.0000 MAX II I911-3

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.4 40.06 99.9 0.09 -- -- 3.4 21342 21342 -- -- 34.937
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.4 2.53 100.0 0.614 -- 2.2 3.5 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 2.4 37.63 -- -- 21269 21269 1089 99.85 0.25453 0.25453 0.25267 0.28839 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.4 2.462 -- 79 1448 0.368 0.363 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.194
Anisotropic B[1][1] -0.02
Anisotropic B[1][2] -0.01
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.03
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.851
r_scbond_it 2.404
r_mcangle_it 1.908
r_mcbond_it 1.02
r_gen_planes_refined 0.007
r_chiral_restr 0.094
r_dihedral_angle_4_deg 15.915
r_dihedral_angle_3_deg 14.496
r_dihedral_angle_2_deg 35.344
r_dihedral_angle_1_deg 6.843
r_angle_refined_deg 1.67
r_bond_refined_d 0.016
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1855
Nucleic Acid Atoms 423
Heterogen Atoms 6
Solvent Atoms 90

Software

Computing
Computing Package Purpose
MARCCD Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.5.0110 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0110 refinement
MOLREP model building
MARCCD data collection