X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 277.0
Details 25-32% P550 MME or P600, 60-100mM HEPES or Na acetate, pH 6.5-8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.01 α = 90
b = 111.39 β = 90
c = 226.93 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2003-04-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 0.933 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
2.4 20 99.4 0.082 -- -- 3.5 -- 78296 0.0 0.0 52.6
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)
2.4 2.5 99.5 0.447 -- 3.3 3.6 --

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 2.4 20.0 -- -- -- 76568 1560 99.16 -- 0.18664 0.18607 0.21362 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 2.4 2.461 -- 100 5361 0.24 0.266 -- 99.33
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 64.463
Anisotropic B[1][1] 2.46
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.35
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -6.82
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.089
r_scbond_it 1.322
r_mcangle_it 0.925
r_mcbond_other 0.108
r_mcbond_it 0.592
r_nbd_refined 0.204
r_gen_planes_other 0.001
r_gen_planes_refined 0.004
r_chiral_restr 0.095
r_dihedral_angle_4_deg 20.293
r_dihedral_angle_3_deg 15.307
r_dihedral_angle_2_deg 33.578
r_dihedral_angle_1_deg 6.43
r_angle_other_deg 0.963
r_angle_refined_deg 1.288
r_bond_other_d 0.002
r_bond_refined_d 0.01
r_nbd_other 0.199
r_nbtor_refined 0.179
r_nbtor_other 0.087
r_xyhbond_nbd_refined 0.14
r_symmetry_vdw_refined 0.118
r_symmetry_vdw_other 0.288
r_symmetry_hbond_refined 0.151
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8350
Nucleic Acid Atoms 0
Heterogen Atoms 116
Solvent Atoms 422

Software

Computing
Computing Package Purpose
ADSC, DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement