X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 0.1M Tris buffer, 25% Peg3350, 0.1M Na,K tartrate, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 55.62 α = 90
b = 74.56 β = 98.54
c = 89.95 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 315 mirrors 2007-03-20
Diffraction Radiation
Monochromator Protocol
mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 0.9730 ESRF ID29

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
1.9 50 98.3 0.084 -- -- 3.0 55779 55779 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)
1.9 1.97 89.8 0.316 -- 3.5 2.3 5060

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 1.95 10.0 -- -- -- 48474 3799 99.18 -- 0.20563 0.20167 0.25558 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 1.95 1.999 -- 257 3376 0.228 0.303 -- 96.42
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.588
Anisotropic B[1][1] 1.03
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.16
Anisotropic B[2][2] -0.97
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.4
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.006
r_scangle_it 3.549
r_chiral_restr 0.103
r_nbd_refined 0.212
r_scbond_it 2.363
r_dihedral_angle_1_deg 5.808
r_mcangle_it 1.47
r_angle_refined_deg 1.493
r_symmetry_hbond_refined 0.173
r_nbtor_refined 0.301
r_bond_refined_d 0.016
r_dihedral_angle_4_deg 14.877
r_mcbond_it 0.917
r_dihedral_angle_2_deg 36.945
r_symmetry_vdw_refined 0.183
r_dihedral_angle_3_deg 16.448
r_xyhbond_nbd_refined 0.168
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5883
Nucleic Acid Atoms 0
Heterogen Atoms 62
Solvent Atoms 499

Software

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