X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7.5
Temperature 293.0
Details 0.1M HEPES pH7.5, 1.0M ammonium sulfate, VAPOR DIFFUSION, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 100.88 α = 90
b = 113.03 β = 90
c = 136.46 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2005-11-03
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.00000 Photon Factory AR-NW12A

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
1.35 34.18 99.9 0.089 -- -- 5.5 -- 339311 -- -- --
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)
1.35 1.42 100.0 0.342 -- -- 5.3 --

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 1.35 34.18 -- -- -- 322071 17132 99.82 -- 0.10439 0.10263 0.13769 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 1.35 1.385 -- 1220 23748 0.129 0.18 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 12.85
Anisotropic B[1][1] 0.75
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.35
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.39
RMS Deviations
Key Refinement Restraint Deviation
r_xyhbond_nbd_other 0.046
r_symmetry_vdw_refined 0.202
r_scbond_it 5.765
r_dihedral_angle_3_deg 11.858
r_xyhbond_nbd_refined 0.238
r_symmetry_hbond_refined 0.318
r_mcbond_it 3.339
r_gen_planes_refined 0.015
r_bond_other_d 0.002
r_nbd_other 0.225
r_nbtor_refined 0.193
r_dihedral_angle_2_deg 35.62
r_nbtor_other 0.097
r_angle_other_deg 1.27
r_symmetry_vdw_other 0.251
r_gen_planes_other 0.001
r_dihedral_angle_4_deg 21.295
r_scangle_it 7.15
r_mcbond_other 1.153
r_nbd_refined 0.251
r_angle_refined_deg 2.475
r_dihedral_angle_1_deg 6.744
r_bond_refined_d 0.031
r_chiral_restr 0.174
r_sphericity_bonded 8.167
r_rigid_bond_restr 2.928
r_mcangle_it 3.911
r_sphericity_free 24.119
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10424
Nucleic Acid Atoms 0
Heterogen Atoms 148
Solvent Atoms 1957

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
ADSC data collection version: Quantum
MOSFLM data reduction
SCALA data scaling