X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 298.0
Details 30% Peg 4K, 0.1M Tris pH 8.5, 0.2M MgCl2, 10mM DTT, 10% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 44.82 α = 90
b = 50.67 β = 90
c = 102.79 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 mirrors 2005-07-15
Diffraction Radiation
Monochromator Protocol
graphite SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25

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
2.2 50 99.1 0.103 -- -- 5.3 12480 12363 2.0 2.0 --
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)
2.2 2.28 95.9 0.567 -- 2.2 4.1 --

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 2.2 45.45 -- -- -- 11737 594 99.2 -- 0.21225 0.20824 0.29396 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 2.2 2.257 -- 42 813 0.251 0.373 -- 95.32
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.169
Anisotropic B[1][1] -0.13
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.08
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.205
r_dihedral_angle_2_deg 35.247
r_scbond_it 3.526
r_dihedral_angle_1_deg 7.338
r_xyhbond_nbd_refined 0.255
r_symmetry_hbond_refined 0.18
r_nbd_refined 0.257
r_dihedral_angle_3_deg 20.413
r_chiral_restr 0.151
r_mcbond_it 1.284
r_angle_refined_deg 2.24
r_bond_refined_d 0.025
r_nbtor_refined 0.303
r_gen_planes_refined 0.009
r_symmetry_vdw_refined 0.244
r_dihedral_angle_4_deg 25.26
r_mcangle_it 2.056
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1616
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 103

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
CBASS data collection
HKL-2000 data reduction
HKL-2000 data scaling
PHASER phasing