X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 293.0
Details 25%(w/v) PEG 3350, 0.1M Sodium Acetate trihydrate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 116.81 α = 90
b = 51.97 β = 122.81
c = 99 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 225 mm CCD -- --
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X12 0.9796, 0.9894, 0.9537 EMBL/DESY, Hamburg X12

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
1.47 50 98.7 -- -- -- -- 86978 85761 0.0 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)
1.47 1.52 87.3 -- -- -- -- --

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
MAD 1.47 14.82 -- 0.0 75884 75884 3988 93.85 0.15254 0.15254 0.14984 0.20405 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 1.469 1.507 -- 205 3947 0.258 0.327 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.122
Anisotropic B[1][1] 0.08
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.09
Anisotropic B[2][2] -0.07
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.08
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 3.307
r_scbond_it 4.714
r_dihedral_angle_2_deg 33.429
r_dihedral_angle_3_deg 12.632
r_chiral_restr 0.164
r_scangle_it 6.638
r_bond_refined_d 0.026
r_dihedral_angle_1_deg 5.918
r_gen_planes_refined 0.012
r_sphericity_bonded 6.865
r_rigid_bond_restr 2.77
r_sphericity_free 11.335
r_dihedral_angle_4_deg 20.428
r_angle_refined_deg 1.987
r_mcbond_it 2.367
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3549
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 807

Software

Software
Software Name Purpose
HKL-2000 data collection
SOLVE phasing
REFMAC refinement version: 5.5.0110
HKL-2000 data reduction
HKL-2000 data scaling