X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 291.0
Details PEG 4000, sodium formate, TRIS, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 168.26 α = 90
b = 76.48 β = 96.68
c = 102.68 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 ADSC QUANTUM 4 Rh coated Si mirror 2004-04-30
Diffraction Radiation
Monochromator Protocol
Si monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX9.6 0.87000 SRS PX9.6

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
1.8 50 99.5 0.081 -- -- 3.7 120128 120128 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)
1.8 1.86 95.4 0.598 -- 2.5 3.3 11473

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 REPLACEMENT 1.8 31.14 0.0 0.0 113681 113681 5996 50.0 0.1693 0.1693 0.16738 0.20549 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 1.8 1.847 5996 444 8274 0.234 0.288 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 16.47
Anisotropic B[1][1] 0.01
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.03
r_scbond_it 2.196
r_mcangle_it 1.089
r_mcbond_other 0.176
r_nbd_refined 0.205
r_gen_planes_other 0.001
r_gen_planes_refined 0.005
r_chiral_restr 0.077
r_dihedral_angle_4_deg 15.507
r_dihedral_angle_3_deg 12.783
r_dihedral_angle_2_deg 36.352
r_dihedral_angle_1_deg 5.924
r_angle_other_deg 0.822
r_angle_refined_deg 1.289
r_bond_other_d 0.002
r_bond_refined_d 0.012
r_nbd_other 0.182
r_nbtor_refined 0.164
r_nbtor_other 0.083
r_xyhbond_nbd_refined 0.15
r_symmetry_vdw_refined 0.184
r_symmetry_vdw_other 0.24
r_symmetry_hbond_refined 0.186
r_mcbond_it 0.93
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9448
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 1219

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement