X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 320.0
Details 25% PEG 400, 0.2M imidazole malate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 320K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 135.82 α = 90
b = 145.71 β = 90
c = 148.55 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2001-07-05
Diffraction Radiation
Monochromator Protocol
Si 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.9840 SSRL BL11-1

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 50 98.0 -- 0.085 -- 4.5 29146 29146 -- 0.0 77.1
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 3.05 98.4 -- 0.476 3.0 -- --

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 3.0 105.41 0.0 0.0 27705 27705 1429 97.51 -- 0.25224 0.24835 0.32921 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 3.078 -- -- 1931 0.505 0.479 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.655
Anisotropic B[1][1] 10.53
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.9
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -13.43
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.195
r_xyhbond_nbd_refined 0.283
r_nbd_refined 0.349
r_dihedral_angle_1_deg 12.7
r_angle_refined_deg 3.315
r_mcbond_it 0.979
r_chiral_restr 0.203
r_scbond_it 3.011
r_symmetry_vdw_refined 0.4
r_scangle_it 4.952
r_gen_planes_refined 0.011
r_bond_refined_d 0.037
r_mcangle_it 1.844
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6592
Nucleic Acid Atoms 0
Heterogen Atoms 256
Solvent Atoms 0

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
HKL-2000 data collection
SCALEPACK data reduction
REFMAC version: 5.1.24 refinement
AMoRE model building