X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4
Temperature 293.0
Details 8-12% Peg8000, 50mM Potassium Dihydrogen Phosphate and 20% Glycerol as cryoprotectant, pH 4, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 81.91 α = 90
b = 145.79 β = 90
c = 192.42 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 2000-09-29
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MAX II BEAMLINE I711 0.8423 MAX_II I711

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
2.8 20 79.3 -- 0.058 -- -- 57328 45472 -3.0 -3.0 --
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)
2.8 2.85 32.0 -- 0.252 -- -- --

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 2.8 20.0 -- 0.0 57328 44537 935 79.32 0.22477 0.22477 0.22428 0.24803 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 2.8 2.872 -- 31 1323 0.315 0.326 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.124
Anisotropic B[1][1] -3.53
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.92
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 5.45
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_vdw_refined 0.421
r_gen_planes_refined 0.004
r_mcangle_it 0.546
r_chiral_restr 0.081
r_scangle_it 1.943
r_nbd_refined 0.231
r_xyhbond_nbd_refined 0.147
r_scbond_it 1.152
r_mcbond_it 0.26
r_dihedral_angle_1_deg 5.356
r_bond_refined_d 0.013
r_symmetry_hbond_refined 0.231
r_angle_refined_deg 1.239
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 16836
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 5

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing