X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 2.8
Temperature 293.0
Details 0.1M SODIUM CITRATE, 0.3M LITHIUM SULFATE, 13% PEG8000, pH 2.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.38 α = 90
b = 91.88 β = 99.6
c = 102.6 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2009-03-20
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.979 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
2.4 50 99.8 0.044 -- -- 3.8 38190 38190 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)
2.4 2.42 100.0 0.433 -- 2.8 3.7 --

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 2.4 33.77 -- -- 31960 31958 1720 87.91 -- 0.20352 0.19987 0.26908 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 -- 74 1338 0.214 0.292 -- 50.27
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 9.914
Anisotropic B[1][1] -0.2
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.01
Anisotropic B[2][2] 0.15
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.06
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.27
r_scbond_it 1.492
r_mcangle_it 1.903
r_mcbond_it 1.197
r_nbd_refined 0.158
r_gen_planes_refined 0.002
r_chiral_restr 0.055
r_dihedral_angle_4_deg 11.144
r_dihedral_angle_3_deg 13.949
r_dihedral_angle_2_deg 32.749
r_dihedral_angle_1_deg 4.401
r_angle_refined_deg 0.873
r_bond_refined_d 0.007
r_nbtor_refined 0.291
r_xyhbond_nbd_refined 0.105
r_metal_ion_refined 0.044
r_symmetry_vdw_refined 0.143
r_symmetry_hbond_refined 0.079
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5637
Nucleic Acid Atoms 0
Heterogen Atoms 67
Solvent Atoms 499

Software

Computing
Computing Package Purpose
HKL-3000 Data Collection
HKL-3000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.3.0037 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.3.0037 refinement
PHASER model building
HKL-3000 data collection