X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 291.0
Details 0.2 M imidazole/malate, 11% PEG4000, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.98 α = 90
b = 77.93 β = 110.18
c = 99.8 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate -- 2009-06-16
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE OTHER 1.541790 -- --

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
1.83 93.68 98.0 -- 0.055 -- 7.1 58097 58097 0.0 -3.0 --
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)
1.83 1.93 86.0 0.373 0.373 1.9 5.7 --

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 1.83 93.68 -- -- -- 55230 2822 97.94 -- 0.18808 0.1861 0.22654 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 1.83 1.882 -- 140 3009 0.519 0.538 -- 72.16
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.704
Anisotropic B[1][1] -0.17
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.89
Anisotropic B[2][2] -0.89
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.45
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.963
r_scbond_it 1.801
r_mcangle_it 1.109
r_mcbond_it 0.597
r_gen_planes_refined 0.006
r_chiral_restr 0.113
r_dihedral_angle_4_deg 15.337
r_dihedral_angle_3_deg 12.152
r_dihedral_angle_2_deg 32.472
r_dihedral_angle_1_deg 5.151
r_angle_refined_deg 1.497
r_bond_refined_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5010
Nucleic Acid Atoms 0
Heterogen Atoms 129
Solvent Atoms 572

Software

Computing
Computing Package Purpose
MAR345dtb Data Collection
HKL Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.5.0102 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
REFMAC5 refinement
MOLREP molecular replacement
SCALA version: 3.3.15 data processing