X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 277.0
Details 1.6M Ammonium sulfate, 10% Dioxane, 0.1M MES pH 6.5, Deoxy-Big Chap, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 166.11 α = 90
b = 37.97 β = 125.49
c = 101.97 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 210 Rh coated Si vertical focus mirror 2007-01-01
Diffraction Radiation
Monochromator Protocol
Horizontal focusing 5.05? asymmetric cut Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE A1 0.987 CHESS A1

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 50 99.5 0.086 -- -- 5.1 -- 20311 -- -1.0 --
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)
2.4 2.49 99.8 0.401 -- -- 4.8 1988

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 41.52 -- 0.0 21228 19317 1911 93.02 -- 0.198 0.1938 0.2375 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 2.462 -- 104 893 0.259 0.346 -- 66.16
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.9785
Anisotropic B[1][1] -0.62
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.06
Anisotropic B[2][2] 0.97
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.87
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.979
r_scbond_it 1.212
r_mcangle_it 0.632
r_mcbond_other 0.075
r_mcbond_it 0.532
r_symmetry_hbond_refined 0.097
r_symmetry_vdw_other 0.243
r_symmetry_vdw_refined 0.088
r_xyhbond_nbd_refined 0.13
r_nbtor_other 0.082
r_nbtor_refined 0.177
r_nbd_other 0.185
r_bond_refined_d 0.01
r_bond_other_d 0.004
r_angle_refined_deg 1.304
r_angle_other_deg 0.909
r_dihedral_angle_1_deg 5.768
r_dihedral_angle_2_deg 35.322
r_dihedral_angle_3_deg 15.486
r_dihedral_angle_4_deg 15.983
r_chiral_restr 0.071
r_gen_planes_refined 0.003
r_gen_planes_other 0.001
r_nbd_refined 0.176
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2675
Nucleic Acid Atoms 230
Heterogen Atoms 94
Solvent Atoms 127

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
REFMAC5 version: 5.2.0019 refinement
SCALEPACK data reduction
DENZO data collection