X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 298.0
Details 390mM (NH4)2HPO4/NaH2PO4, pH 6.0, 50mM Dioxane, 10mM DTT, 9-11% PEG 6000, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 170.45 α = 90
b = 222.29 β = 101.72
c = 195.09 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD -- 2008-01-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.98 SSRL BL11-1

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
3.8 50 97.9 -- -- -- 3.1 -- 68251 -- -- --
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)
3.8 3.9 97.3 -- -- 2.1 2.8 --

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
MOLECULA REPLACEMENT 3.8 50.0 -- -- -- 64783 3444 97.36 -- 0.2483 0.24669 0.27798 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 3.8 3.9 -- 242 4466 0.351 0.378 -- 91.01
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 142.89
Anisotropic B[1][1] 2.24
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -11.93
Anisotropic B[2][2] -6.22
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.87
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 17.54
r_mcangle_it 12.503
r_dihedral_angle_3_deg 19.637
r_xyhbond_nbd_refined 0.189
r_nbd_refined 0.289
r_angle_refined_deg 1.494
r_scangle_it 5.975
r_mcbond_it 9.021
r_symmetry_hbond_refined 0.298
r_dihedral_angle_2_deg 31.078
r_gen_planes_refined 0.005
r_symmetry_vdw_refined 0.268
r_bond_refined_d 0.012
r_chiral_restr 0.092
r_nbtor_refined 0.323
r_scbond_it 3.374
r_dihedral_angle_1_deg 6.411
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 28948
Nucleic Acid Atoms 1155
Heterogen Atoms 8
Solvent Atoms 0

Software

Software
Software Name Purpose
MAR345 data collection version: CCD
REFMAC refinement version: 5.2.0019
HKL-2000 data reduction
SCALEPACK data scaling