X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.2
Details pH 7.2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 97.16 α = 90
b = 97.16 β = 90
c = 81.05 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 155
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE (RAXIS-IV) RIGAKU MIRRORS 2006-10-13
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MM-007 -- -- --

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
2.6 26.51 99.8 0.1 -- -- 6.16 -- 12791 -- -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)
2.6 3.08 100.0 0.22 -- 3.25 6.15 --

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 2.6 26.51 -- -- -- 12791 679 99.84 -- 0.18391 0.18055 0.24759 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 2.6 2.667 -- 49 946 0.23 0.298 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.165
Anisotropic B[1][1] 0.02
Anisotropic B[1][2] 0.01
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.03
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.797
r_scbond_it 2.392
r_mcangle_it 1.805
r_mcbond_it 1.027
r_nbd_refined 0.243
r_gen_planes_refined 0.006
r_chiral_restr 0.115
r_dihedral_angle_4_deg 21.187
r_dihedral_angle_3_deg 18.053
r_dihedral_angle_2_deg 33.44
r_dihedral_angle_1_deg 7.252
r_angle_refined_deg 1.78
r_bond_refined_d 0.019
r_nbtor_refined 0.337
r_xyhbond_nbd_refined 0.166
r_symmetry_vdw_refined 0.176
r_symmetry_hbond_refined 0.201
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2225
Nucleic Acid Atoms 0
Heterogen Atoms 27
Solvent Atoms 91

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
PHASER model building