X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 295.0
Details 15% PEG 10,000, 0.1M imidazole HCl, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 295.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 74.02 α = 90
b = 109.84 β = 90
c = 29.28 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2004-01-08
Diffraction Radiation
Monochromator Protocol
-- single wavelength
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.1159 ALS 8.3.1

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
1.45 35 93.1 -- 0.054 -- 4.6 40482 40482 0.0 -3.0 17.0
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)
1.45 1.48 52.6 -- 0.394 2.0 -- --

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 1.45 35.0 0.0 0.0 40410 40410 2025 93.16 -- 0.19744 0.19601 0.22534 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 1.45 1.488 -- -- 1645 0.308 0.364 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.334
Anisotropic B[1][1] -0.1
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.31
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.42
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.835
r_scbond_it 2.875
r_mcangle_it 1.957
r_mcbond_other 0.356
r_mcbond_it 1.615
r_symmetry_hbond_refined 0.183
r_symmetry_vdw_other 0.255
r_symmetry_vdw_refined 0.176
r_xyhbond_nbd_refined 0.159
r_nbtor_other 0.084
r_nbd_other 0.2
r_bond_refined_d 0.019
r_bond_other_d 0.003
r_angle_refined_deg 1.724
r_angle_other_deg 0.938
r_dihedral_angle_1_deg 6.097
r_dihedral_angle_2_deg 33.18
r_dihedral_angle_3_deg 12.588
r_dihedral_angle_4_deg 17.499
r_chiral_restr 0.123
r_gen_planes_refined 0.008
r_gen_planes_other 0.001
r_nbd_refined 0.229
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1835
Nucleic Acid Atoms 0
Heterogen Atoms 21
Solvent Atoms 189

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
EPMR Structure Solution
REFMAC 5.1.9999 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.9999 refinement