X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 277.0
Details 50mM imidazole pH 7.5, 200-400mM CaCl, 20% PEG 1k, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 39.75 α = 90
b = 60.62 β = 103.1
c = 58.4 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 -- 2008-06-25
Diffraction Radiation
Monochromator Protocol
Silicon (1 1 1) channel-cut, silicon toroidal mirror coated with Rhodium SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 1.072250 ESRF ID23-1

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
1.3 41.49 98.2 0.08 0.08 -- 2.8 65111 65111 -- -- --
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)
1.3 1.37 89.1 0.635 0.635 1.2 2.1 8579

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 1.3 41.487 -- 0.0 -- 64982 3294 100.0 -- 0.1324 0.1302 0.1736 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 1.3 1.334 -- 217 3826 0.273 0.269 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.7329
Anisotropic B[1][1] -0.93
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.22
Anisotropic B[2][2] 0.93
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.1
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.007
r_dihedral_angle_2_deg 31.981
r_dihedral_angle_3_deg 10.438
r_dihedral_angle_4_deg 16.419
r_bond_refined_d 0.01
r_scangle_it 3.724
r_angle_refined_deg 1.465
r_mcbond_it 1.299
r_dihedral_angle_1_deg 5.567
r_rigid_bond_restr 1.301
r_chiral_restr 0.091
r_mcangle_it 2.055
r_scbond_it 2.695
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2451
Nucleic Acid Atoms 0
Heterogen Atoms 78
Solvent Atoms 490

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 3.2.25
PHASER phasing version: 2.1.4
REFMAC refinement
PDB_EXTRACT data extraction version: 3.10
ADSC data collection version: Quantum