X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 4.6
Details 0.17M AMMONUM ACETATE, 0.085M SODIUM ACETATE:HCL, PH 4.6, 25.5% PEG4000, 15% GLYCEROL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.94 α = 90
b = 81.52 β = 90
c = 287.74 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 MIRRORS 2012-11-08
Diffraction Radiation
Monochromator Protocol
Rosenbaum-Rock double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A -- NSLS X29A

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
1.75 50 98.3 -- 0.086 -- 10.8 -- 76059 -- -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)
1.75 1.78 98.3 0.93 -- 2.2 10.4 --

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 1.76 41.79 -- -- -- 73684 2296 98.29 -- 0.15569 0.15415 0.20209 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 1.76 1.806 -- 178 5411 0.231 0.266 -- 98.73
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 40.331
Anisotropic B[1][1] -0.7
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.73
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 15.271
r_sphericity_free 27.237
r_rigid_bond_restr 2.629
r_gen_planes_other 0.001
r_gen_planes_refined 0.005
r_chiral_restr 0.072
r_dihedral_angle_4_deg 21.008
r_dihedral_angle_3_deg 13.735
r_dihedral_angle_2_deg 37.248
r_dihedral_angle_1_deg 5.423
r_angle_other_deg 0.761
r_angle_refined_deg 1.152
r_bond_other_d 0.001
r_bond_refined_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5015
Nucleic Acid Atoms 0
Heterogen Atoms 75
Solvent Atoms 450

Software

Computing
Computing Package Purpose
HKL-3000 Data Reduction (intensity integration)
HKL-3000 Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.7.0029 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.7.0029 refinement
PHASER model building