X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.25
Temperature 293.0
Details 1.5M-1.6M NH4H2PO, pH 4.0-4.5, VAPOR DIFFUSION, HANGING DROP, pH 4.25, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.29 α = 90
b = 115.06 β = 90
c = 36.97 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
3 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 2000-02-25
IMAGE PLATE RIGAKU RAXIS IIC -- 1999-08-27
IMAGE PLATE MARRESEARCH -- 1998-09-23
Diffraction Radiation
Monochromator Protocol
mirrors SINGLE WAVELENGTH
graphite SINGLE WAVELENGTH
osmic mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU 1.5418 -- --
ROTATING ANODE RIGAKU 1.5418 -- --
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 0.8346 EMBL/DESY, Hamburg BW7B

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
1.57 15 99.0 0.139 0.139 -- -- 47148 46580 -- -3.0 28.9
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)
1.57 1.6 96.0 0.223 0.223 -- -- --

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 1.57 14.89 0.0 0.0 89176 46580 4227 98.3 0.225 0.223 0.223 0.265 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 1.57 1.67 -- 644 13763 0.588 0.598 0.024 96.3
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 34.0
Anisotropic B[1][1] -10.25
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -5.58
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 15.83
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 1.0
c_dihedral_angle_d 22.0
c_scbond_it 0.42
c_mcbond_it 0.78
c_bond_d 0.019
c_mcangle_it 1.25
c_scangle_it 0.67
c_angle_deg 1.5
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.42
Luzzati Sigma A (R-Free Set) 0.63
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4918
Nucleic Acid Atoms 0
Heterogen Atoms 90
Solvent Atoms 342

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing
CNS refinement version: 0.9