X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 278.0
Details MES, DTT, EDTA, NaN3, KCl, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 278K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.45 α = 90
b = 85.76 β = 90
c = 46.75 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
IMAGE PLATE MARRESEARCH -- 1997-07-01
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE ENRAF-NONIUS FR591 1.54178 -- --

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
1.9 50 95.9 0.065 -- -- 4.74 18388 18388 0.0 0.0 22.772
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)
1.9 1.97 91.3 0.376 -- 3.0 -- 1715

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
FOURIER SYNTHESIS 1.9 43.03 0.0 0.0 18388 17421 948 95.89 0.18116 0.18116 0.17808 0.2408 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 1.9 1.949 -- 74 1196 0.221 0.297 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.734
Anisotropic B[1][1] 0.7
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.66
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.04
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.048
r_scbond_it 1.938
r_mcangle_it 2.489
r_mcbond_it 1.613
r_symmetry_hbond_refined 0.16
r_symmetry_vdw_other 0.26
r_symmetry_vdw_refined 0.096
r_bond_refined_d 0.022
r_bond_other_d 0.001
r_angle_refined_deg 1.727
r_angle_other_deg 0.736
r_dihedral_angle_1_deg 5.644
r_chiral_restr 0.111
r_gen_planes_refined 0.008
r_gen_planes_other 0.001
r_nbd_refined 0.189
r_nbd_other 0.275
r_nbtor_other 0.09
r_xyhbond_nbd_refined 0.199
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1520
Nucleic Acid Atoms 0
Heterogen Atoms 50
Solvent Atoms 221

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement
REFMAC version: - FOURIER SYNTHESIS model building
SCALEPACK data reduction
DENZO data collection