X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

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_dihedral_angle_3_deg 14.496
r_angle_refined_deg 1.67
r_scbond_it 2.404
r_mcangle_it 1.908
r_gen_planes_refined 0.007
r_mcbond_it 1.02
r_dihedral_angle_2_deg 35.344
r_chiral_restr 0.094
r_dihedral_angle_1_deg 6.843
r_bond_refined_d 0.016
r_dihedral_angle_4_deg 15.915
r_scangle_it 3.851
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

Software
Software Name Purpose
MARCCD data collection
MOLREP phasing
REFMAC refinement version: 5.5.0110
MOSFLM data reduction
SCALA data scaling