X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details PIPES, Ammonium Sulphate, Ammonium thiocyanate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 246.36 α = 90
b = 106.57 β = 133.19
c = 172.69 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 1998-05-20
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 1.08 SSRL BL7-1

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
3.1 45 97.2 -- 0.118 -- -- -- 58030 -3.0 -3.0 --
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)
3.1 3.5 94.2 -- 0.42 2.4 -- 17019

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 3.11 45.0 0.0 0.0 -- 52826 2819 94.27 0.27846 0.27846 0.27545 0.33409 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 3.106 3.273 -- 364 7390 0.369 0.422 -- 90.48
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 59.255
Anisotropic B[1][1] -1.7
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.0
Anisotropic B[2][2] 5.91
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.58
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.469
r_mcangle_it 2.335
r_mcbond_it 1.909
r_angle_refined_deg 1.504
r_dihedral_angle_2_deg 35.017
r_gen_planes_refined 0.005
r_chiral_restr 0.107
r_dihedral_angle_3_deg 22.905
r_xyhbond_nbd_refined 0.165
r_bond_refined_d 0.011
r_symmetry_vdw_refined 0.215
r_dihedral_angle_1_deg 5.828
r_nbd_refined 0.242
r_scbond_it 0.843
r_dihedral_angle_4_deg 18.067
r_symmetry_hbond_refined 0.14
r_nbtor_refined 0.313
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 12152
Nucleic Acid Atoms 0
Heterogen Atoms 282
Solvent Atoms 78

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0003
XDS data reduction
XDS data scaling
PHASER phasing version: V. 1.2