X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 294.0
Details 16% PEG 8K, 20mM MES, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.85 α = 90
b = 93.75 β = 90.02
c = 79.9 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2004-04-04
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 0.934 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
1.65 30 98.8 0.066 -- -- -- 109988 108788 2.0 2.0 --
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)
1.65 1.71 -- 0.767 -- 1.7 -- --

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 1.65 29.8 -- -- -- 104441 5497 98.86 -- 0.19015 0.18758 0.2389 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 1.65 1.693 -- 379 7113 0.282 0.342 -- 91.31
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 37.524
Anisotropic B[1][1] -0.54
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.01
Anisotropic B[2][2] 0.38
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.16
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.006
r_scangle_it 3.64
r_chiral_restr 0.101
r_mcbond_it 0.981
r_scbond_it 2.404
r_dihedral_angle_3_deg 13.571
r_xyhbond_nbd_refined 0.216
r_symmetry_vdw_refined 0.23
r_nbd_refined 0.228
r_nbtor_refined 0.303
r_symmetry_hbond_refined 0.224
r_bond_refined_d 0.013
r_dihedral_angle_1_deg 6.353
r_mcangle_it 1.471
r_angle_refined_deg 1.463
r_dihedral_angle_4_deg 17.954
r_dihedral_angle_2_deg 32.187
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6322
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 1703

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
EPMR phasing
REFMAC refinement version: 5.0
DENZO data reduction
SCALEPACK data scaling