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_dihedral_angle_1_deg 6.43
r_dihedral_angle_3_deg 15.307
r_symmetry_hbond_refined 0.151
r_angle_refined_deg 1.288
r_gen_planes_other 0.001
r_bond_refined_d 0.01
r_symmetry_vdw_refined 0.118
r_mcangle_it 0.925
r_bond_other_d 0.002
r_mcbond_it 0.592
r_angle_other_deg 0.963
r_chiral_restr 0.095
r_nbd_refined 0.204
r_nbd_other 0.199
r_xyhbond_nbd_refined 0.14
r_symmetry_vdw_other 0.288
r_scbond_it 1.322
r_dihedral_angle_4_deg 20.293
r_nbtor_refined 0.179
r_dihedral_angle_2_deg 33.578
r_gen_planes_refined 0.004
r_scangle_it 2.089
r_mcbond_other 0.108
r_nbtor_other 0.087
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

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
ADSC data collection
DENZO data reduction
SCALEPACK data scaling