X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 288.15
Details 19% PEG 2000, 0.1M Tris HCl, 0.16M NaCl, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 288.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 114.05 α = 90
b = 114.05 β = 90
c = 184.15 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2009-12-04
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSRRC BEAMLINE BL13B1 1.0000 NSRRC BL13B1

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
2.4 30 99.6 0.104 -- -- 6.2 -- 48324 0.0 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)
2.4 2.49 99.6 0.53 -- 3.4 6.2 48324

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 2.4 25.86 -- -- -- 45810 2441 99.83 -- 0.19774 0.19579 0.23432 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 2.398 2.46 -- 168 3318 0.25 0.293 -- 99.6
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.611
Anisotropic B[1][1] 0.46
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.46
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.92
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 15.197
r_dihedral_angle_4_deg 19.965
r_angle_refined_deg 1.015
r_scbond_it 0.683
r_metal_ion_refined 0.093
r_chiral_restr 0.074
r_gen_planes_refined 0.003
r_dihedral_angle_1_deg 5.547
r_mcangle_it 0.574
r_nbd_refined 0.181
r_nbtor_refined 0.305
r_xyhbond_nbd_refined 0.115
r_symmetry_hbond_refined 0.101
r_bond_refined_d 0.006
r_symmetry_vdw_refined 0.179
r_dihedral_angle_2_deg 32.436
r_mcbond_it 0.305
r_scangle_it 1.136
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7722
Nucleic Acid Atoms 0
Heterogen Atoms 59
Solvent Atoms 511

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
MOLREP phasing
REFMAC refinement version: 5.2.0019
HKL-2000 data reduction
HKL-2000 data scaling