X-RAY DIFFRACTION Experimental Data & Validation


Lost? View more X-Ray Crystallographic info.

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 298.0
Details 22% PEG 400, 0.2M CaCl2, 0.1M HEPES, pH 7.5, vapor diffusion, hanging drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 155.39 α = 90
b = 155.39 β = 90
c = 317.85 γ = 120
Symmetry
Space Group P 62 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV++ -- 2011-09-25
Diffraction Radiation
Monochromator Protocol
Varimax optics SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418 -- --

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
3.19 29.74 99.6 0.315 -- -- -- -- 38297 -- -3.0 17.228
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)
3.19 3.39 99.0 0.733 -- 5.35 -- --

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 3.19 29.74 -- 0.0 -- 38297 1915 100.0 -- 0.2059 0.2022 0.277 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 3.194 3.276 -- 135 2563 0.244 0.37 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.828
Anisotropic B[1][1] -1.77
Anisotropic B[1][2] -0.88
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.77
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.65
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 0.122
r_scbond_it 0.057
r_mcangle_it 0.291
r_mcbond_it 0.163
r_gen_planes_refined 0.003
r_chiral_restr 0.064
r_dihedral_angle_4_deg 19.342
r_dihedral_angle_3_deg 15.637
r_dihedral_angle_2_deg 39.934
r_dihedral_angle_1_deg 5.018
r_angle_refined_deg 0.995
r_bond_refined_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 14999
Nucleic Acid Atoms 0
Heterogen Atoms 308
Solvent Atoms 414

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
REFMAC5 refinement
Phaser molecular replacement
Xscale data reduction