X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 293.0
Details 3%w/v Dextrose, 30%w/v PEG 2K MME, 0.1 M KSCN, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 55.76 α = 90
b = 66.01 β = 90
c = 55.62 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 mirrors 2006-06-11
Diffraction Radiation
Monochromator Protocol
Si 111 channel SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 1.27819 APS 19-ID

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
1.75 33.83 99.3 0.062 0.061 -- 7.3 21489 21339 -- -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)
1.746 1.81 98.0 0.397 0.365 2.9 5.8 2043

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
isomorphous replacement 1.746 33.83 0.0 0.0 20076 20076 1091 98.6 0.21136 0.21136 0.20916 0.25102 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 1.746 1.791 -- 87 1310 0.237 0.361 -- 90.07
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.019
Anisotropic B[1][1] -0.64
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.17
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.81
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.379
r_scbond_it 3.355
r_mcangle_it 1.551
r_mcbond_it 1.313
r_nbd_refined 0.21
r_gen_planes_refined 0.006
r_chiral_restr 0.098
r_dihedral_angle_4_deg 21.717
r_dihedral_angle_3_deg 13.814
r_dihedral_angle_2_deg 32.256
r_dihedral_angle_1_deg 4.425
r_angle_refined_deg 1.493
r_bond_refined_d 0.022
r_nbtor_refined 0.311
r_xyhbond_nbd_refined 0.14
r_symmetry_vdw_refined 0.28
r_symmetry_hbond_refined 0.16
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1638
Nucleic Acid Atoms 0
Heterogen Atoms 4
Solvent Atoms 151

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
CCP4, COOT, REFMAC Structure Solution
REFMAC 5.2 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2 refinement
HKL-2000 data collection