X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 293.0
Details PEG4000, MPD, Nacacodylate, pH 6.00, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 115.92 α = 90
b = 39.3 β = 116.19
c = 69.15 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-03-08
Diffraction Radiation
Monochromator Protocol
Mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 -- ESRF ID14-1

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
1.5 62.02 99.4 0.057 -- -- 3.7 -- 43648 0.0 0.0 --
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)
1.5 1.58 99.4 0.283 -- 2.5 3.5 --

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 1.5 24.254 -- 0.0 40227 40227 3063 96.0 0.1472 0.14729 0.14559 0.16969 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 1.5 1.539 -- 203 2695 0.193 0.241 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 12.591
Anisotropic B[1][1] -0.99
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.04
Anisotropic B[2][2] -0.07
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.14
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 2.376
r_sphericity_free 7.6
r_rigid_bond_restr 0.618
r_scangle_it 3.699
r_scbond_it 2.426
r_mcangle_it 1.601
r_mcbond_it 0.967
r_symmetry_hbond_refined 0.228
r_symmetry_vdw_other 0.288
r_symmetry_vdw_refined 0.284
r_bond_refined_d 0.009
r_bond_other_d 0.002
r_angle_refined_deg 1.204
r_angle_other_deg 0.835
r_dihedral_angle_1_deg 5.145
r_chiral_restr 0.08
r_gen_planes_refined 0.005
r_gen_planes_other 0.003
r_nbd_refined 0.205
r_nbd_other 0.237
r_nbtor_other 0.077
r_xyhbond_nbd_refined 0.166
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2163
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 358

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement
AMORE model building
SCALA-CCP4 data reduction
DENZO data collection