X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details ammonium sulfate, Tris-HCl, Ethanol, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 32.76 α = 90
b = 32.76 β = 90
c = 176.82 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 293
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2000-12-24
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-18B 1.0 PHOTON FACTORY BL-18B

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
1.4 29.3 85.8 0.04 -- -- -- -- 19260 0.0 -- --
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)
1.4 1.48 74.6 0.201 -- 3.6 -- --

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 1.4 29.49 -- 0.0 19260 17355 1898 100.0 -- 0.14416 0.14194 0.16448 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 1.4 1.436 -- 110 1074 0.153 0.203 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.774
Anisotropic B[1][1] 0.29
Anisotropic B[1][2] 0.14
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.29
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.43
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 3.416
r_sphericity_free 9.308
r_rigid_bond_restr 1.901
r_scangle_it 5.59
r_scbond_it 3.705
r_mcangle_it 3.069
r_mcbond_it 1.873
r_symmetry_hbond_refined 0.159
r_symmetry_vdw_other 0.35
r_symmetry_vdw_refined 0.243
r_bond_refined_d 0.016
r_bond_other_d 0.003
r_angle_refined_deg 1.986
r_angle_other_deg 1.086
r_dihedral_angle_1_deg 5.699
r_chiral_restr 0.153
r_gen_planes_refined 0.009
r_gen_planes_other 0.003
r_nbd_refined 0.229
r_nbd_other 0.283
r_nbtor_other 0.095
r_xyhbond_nbd_refined 0.141
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1008
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 118

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.04 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.04 refinement
AMoRE model building
SCALA data reduction
MOSFLM data collection