X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.75
Temperature 392.0
Details PEG 3350, magnesium acetate, Tris HCl, pH 7.75, VAPOR DIFFUSION, HANGING DROP, temperature 392K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 63.67 α = 90
b = 89.97 β = 90
c = 62.2 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2002-09-17
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 0.979190 APS 22-ID

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
1.3 15 99.8 -- -- -- -- 85878 85878 1.0 2.0 --
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)
1.3 1.32 99.8 -- -- -- -- --

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 1.3 15.0 0.0 0.0 85878 85878 2038 99.73 0.1382 0.13825 0.13775 0.16005 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 1.301 1.335 -- 149 6168 0.155 0.206 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 11.23
Anisotropic B[1][1] 0.07
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.52
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.45
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 4.262
r_sphericity_free 9.166
r_rigid_bond_restr 1.719
r_scangle_it 4.902
r_scbond_it 3.442
r_mcangle_it 2.263
r_mcbond_it 1.56
r_symmetry_hbond_refined 0.116
r_symmetry_vdw_other 0.361
r_symmetry_vdw_refined 0.399
r_bond_refined_d 0.02
r_bond_other_d 0.025
r_angle_refined_deg 1.813
r_angle_other_deg 1.041
r_dihedral_angle_1_deg 6.27
r_chiral_restr 0.12
r_gen_planes_refined 0.021
r_gen_planes_other 0.036
r_nbd_refined 0.247
r_nbd_other 0.254
r_nbtor_other 0.086
r_xyhbond_nbd_refined 0.126
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3111
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 325

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement