X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9
Temperature 298.0
Details 16% PEG 8000, 200 mM calcium acetate (CaAc2), 22.5 mM sodium nitrite (NO2), 100 mM bicine, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 122.7 α = 90
b = 202.85 β = 90
c = 247.1 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2007-11-20
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 1.00 APS 19-ID

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 50 99.7 0.089 -- -- 8.3 123481 123152 1.0 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)
3.0 3.11 99.5 0.33 -- 6.0 8.4 --

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 3.0 48.31 -- -- -- 116905 6174 99.67 -- 0.18751 0.18505 0.23393 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 3.0 3.08 -- 445 8411 0.26 0.34 -- 98.54
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 40.871
Anisotropic B[1][1] 0.01
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.02
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 7.128
r_mcbond_it 0.521
r_dihedral_angle_3_deg 18.511
r_chiral_restr 0.107
r_scbond_it 1.541
r_angle_refined_deg 1.704
r_dihedral_angle_4_deg 19.745
r_bond_refined_d 0.017
r_gen_planes_refined 0.008
r_scangle_it 2.598
r_dihedral_angle_2_deg 33.348
r_mcangle_it 1.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 38560
Nucleic Acid Atoms 0
Heterogen Atoms 940
Solvent Atoms 20

Software

Software
Software Name Purpose
SBC-Collect data collection
PHASER phasing
REFMAC refinement version: 5.5.0109
HKL-2000 data reduction
SCALEPACK data scaling