X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 9
Temperature 295.0
Details PEGMME550, MGCl2, TAPS, pH 9.0, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 99.73 α = 90
b = 53.67 β = 119.92
c = 57.84 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
IMAGE PLATE MARRESEARCH -- 1997-04-24
Diffraction Radiation
Monochromator Protocol
SSRL BL 9-1 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-1 0.98 SSRL BL9-1

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
1.1 50 95.4 0.037 0.037 -- 4.27 -- 102368 -3.0 -3.0 --
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)
1.1 1.12 90.0 0.324 0.324 3.2 2.96 --

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
MOLECULAR SUBSTITUTION 1.1 50.0 -- 0.0 97286 92430 4856 90.65 0.1371 0.13713 0.13547 0.1685 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 1.1 1.128 -- 324 5779 0.187 0.214 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.404
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 11.339
r_sphericity_free 32.935
r_rigid_bond_restr 4.063
r_scangle_it 10.391
r_scbond_it 7.123
r_mcangle_it 4.65
r_mcbond_it 3.451
r_symmetry_hbond_refined 0.172
r_symmetry_vdw_other 0.22
r_symmetry_vdw_refined 0.185
r_xyhbond_nbd_other 0.459
r_bond_refined_d 0.025
r_bond_other_d 0.001
r_angle_refined_deg 2.093
r_angle_other_deg 1.146
r_dihedral_angle_1_deg 4.834
r_dihedral_angle_3_deg 16.078
r_chiral_restr 0.182
r_gen_planes_refined 0.01
r_gen_planes_other 0.002
r_nbd_refined 0.247
r_nbd_other 0.194
r_xyhbond_nbd_refined 0.248
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2223
Nucleic Acid Atoms 0
Heterogen Atoms 7
Solvent Atoms 284

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
X-PLOR Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
X-PLOR model building
SCALEPACK data reduction
DENZO data collection