X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 298.0
Details 10% PEG8000; 10% Ethylene glycol; 100mM HEPES, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 102.73 α = 90
b = 102.73 β = 90
c = 54.31 γ = 90
Symmetry
Space Group P 42 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 mirrors 2006-02-12
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.10000, 0.97910 NSLS X29A

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
2.7 50 97.7 0.109 -- -- -- -- 8264 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)
2.7 2.8 81.4 0.536 -- -- -- --

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
SAD 2.7 37.32 -- 0.0 -- 7426 810 97.73 -- 0.25184 0.24775 0.28872 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 2.7 2.77 -- 49 440 0.367 0.37 -- 79.64
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 56.345
Anisotropic B[1][1] -1.73
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.73
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.45
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.201
r_dihedral_angle_1_deg 7.251
r_chiral_restr 0.107
r_bond_refined_d 0.018
r_scbond_it 2.333
r_xyhbond_nbd_refined 0.148
r_nbtor_refined 0.317
r_symmetry_vdw_refined 0.199
r_dihedral_angle_4_deg 14.0
r_mcangle_it 1.814
r_dihedral_angle_3_deg 15.795
r_gen_planes_refined 0.005
r_scangle_it 3.68
r_angle_refined_deg 1.681
r_dihedral_angle_2_deg 32.972
r_mcbond_it 1.032
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1640
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
SOLVE phasing version: 2.10
RESOLVE phasing version: 2.10
REFMAC refinement
PDB_EXTRACT data extraction version: 2.000