X-RAY DIFFRACTION Experimental Data & Validation

X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.8
Temperature 290.0
Details methanol,calcium chloride,MES, pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 290.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 115.74 α = 90
b = 129.7 β = 108.38
c = 117.98 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 MARRESEARCH Bent mirror 2002-09-28
Diffraction Radiation
Monochromator Protocol
Triangular monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.81 EMBL/DESY, Hamburg X11

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
2.5 10 99.6 0.065 0.061 -- 3.28 114277 114277 13.91 12.6 --
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)
2.5 2.59 99.2 0.291 0.246 -- -- 9674

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 2.5 10.0 -- 2.0 114277 105347 5537 98.64 -- 0.19912 0.19478 0.28139 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 2.5 2.561 -- 349 6609 0.271 0.355 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 46.425
Anisotropic B[1][1] 5.92
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.74
Anisotropic B[2][2] -2.96
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.86
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 2.947
r_mcbond_it 1.509
r_symmetry_hbond_refined 0.418
r_scbond_it 4.397
r_xyhbond_nbd_refined 0.172
r_bond_refined_d 0.041
r_nbd_refined 0.269
r_scangle_it 6.224
r_dihedral_angle_1_deg 8.981
r_mcangle_it 2.705
r_chiral_restr 0.214
r_symmetry_vdw_refined 0.263
r_gen_planes_refined 0.014
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 21210
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 208

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
MAR345 data collection
SCALEPACK data scaling
AMoRE phasing