X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4
Temperature 293.2
Details PEG6000, sodium citrate, calcium chloride, pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 293.2K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.48 α = 90
b = 58.69 β = 109.62
c = 67.04 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 90
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2000-05-18
CCD MARRESEARCH -- 2000-10-10
Diffraction Radiation
Monochromator Protocol
Si 111 channel SINGLE WAVELENGTH
a fixed-exit double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44B2 1.0000 SPring-8 BL44B2
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A 1.0000 Photon Factory BL-6A

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 30 98.2 0.065 0.055 -- 5.1 37943 37256 3.0 3.0 19.4
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 2.0 98.4 0.176 0.15 4.6 3.6 5352

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
MIR 1.9 20.0 0.0 0.0 37904 37184 1852 98.1 -- -- 0.194 0.222 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 21.1
Anisotropic B[1][1] 2.228
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.737
Anisotropic B[2][2] 1.374
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.602
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.005
c_dihedral_angle_d 21.2
c_improper_angle_d 0.85
c_angle_deg 1.254
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.21
Luzzati Sigma A (Observed) 0.12
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.24
Luzzati Sigma A (R-Free Set) 0.16
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3524
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 315

Software

Software
Software Name Purpose
MOSFLM data reduction
DENZO data reduction
SCALA data scaling
SCALEPACK data scaling
MLPHARE phasing
DM model building
CNS refinement version: 1.0
CCP4 data scaling version: (SCALA)
DM phasing