X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 8
Details PEG 4000, ethelyene glycol, pH 8.0, VAPOR DIFFUSION

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.85 α = 90
b = 81.29 β = 90
c = 132.34 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS -- 2007-01-07
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 1.54 -- --

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
1.8 19.97 94.5 0.073 -- -- 3.49 -- 44150 -- -- --
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)
1.8 1.86 99.5 0.228 -- 4.0 3.73 4550

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 1.85 20.0 -- 0.0 -- 40510 2071 94.01 -- 0.226 0.224 0.273 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 1.85 1.898 -- 172 2922 0.37 0.44 -- 99.33
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.304
Anisotropic B[1][1] 1.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.8
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.2
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 7.12
r_scangle_it 3.656
r_dihedral_angle_2_deg 40.15
r_mcangle_it 1.571
r_scbond_it 2.629
r_angle_refined_deg 1.723
r_chiral_restr 0.123
r_nbd_refined 0.222
r_gen_planes_refined 0.008
r_mcbond_it 1.002
r_symmetry_metal_ion_refined 0.428
r_nbtor_refined 0.302
r_bond_refined_d 0.018
r_xyhbond_nbd_refined 0.284
r_symmetry_hbond_refined 0.14
r_dihedral_angle_3_deg 14.208
r_dihedral_angle_4_deg 20.431
r_symmetry_vdw_refined 0.245
r_metal_ion_refined 0.095
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3315
Nucleic Acid Atoms 0
Heterogen Atoms 36
Solvent Atoms 461

Software

Software
Software Name Purpose
d*TREK data scaling version: 9.4SSI
PHASER phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.004