X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details HANGING DROP VAPOR DIFFUSION, 0.2 M MGCL2, 0.1 M BIS-TRIS AT PH 5.5, 25% V/V PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 41.96 α = 90
b = 58.66 β = 90
c = 96.43 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD (QUANTUM 315) ADSC -- 2008-04-25
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 -- ESRF ID23-1

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
1.95 48.22 99.9 0.1 -- -- 7.48 -- 18022 -- 2.0 21.2
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)
1.95 2.06 99.6 0.57 -- 1.32 7.55 --

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 1.95 50.125 -- 0.0 -- 17963 910 99.872 -- 0.169 0.1662 0.2185 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 1.95 2.001 -- 68 1226 0.199 0.294 -- 99.005
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.84
Anisotropic B[1][1] -2.174
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.521
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.652
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.976
r_scbond_it 1.902
r_mcangle_it 1.37
r_mcbond_it 0.756
r_nbd_refined 0.207
r_gen_planes_refined 0.006
r_chiral_restr 0.102
r_dihedral_angle_4_deg 17.287
r_dihedral_angle_3_deg 13.157
r_dihedral_angle_2_deg 41.771
r_dihedral_angle_1_deg 6.647
r_angle_refined_deg 1.428
r_bond_refined_d 0.013
r_nbtor_refined 0.314
r_xyhbond_nbd_refined 0.132
r_metal_ion_refined 0.179
r_symmetry_vdw_refined 0.191
r_symmetry_hbond_refined 0.185
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2065
Nucleic Acid Atoms 0
Heterogen Atoms 64
Solvent Atoms 208

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0109 refinement
MOLREP model building