X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 4.6
Details BATCH METHOD. 20 MG/ML PROTEIN SOLUTION IN 50MM SODIUM ACETATE PH 4.6 AND 10% NACL. CRYSTALS GROWN AT ROOM TEMPERATURE.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.81 α = 90
b = 78.81 β = 90
c = 36.8 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH SEGMENTED MIRROR 1994-12-01
Diffraction Radiation
Monochromator Protocol
SILICON CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X9B -- NSLS X9B

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
0.92 25 90.1 0.028 0.028 -- 2.0 -- 58373 -- 3.0 17.7
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)
0.93 0.94 78.0 0.17 0.17 4.9 2.0 --

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 1.53 25.0 -- 0.0 -- 17923 915 100.0 -- 0.22 0.22 0.31 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.6
Anisotropic B[1][1] 1.043
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.043
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.96
RMS Deviations
Key Refinement Restraint Deviation
p_transverse_tor 20.1
p_staggered_tor 14.9
p_planar_tor 5.7
p_xyhbond_nbd 0.21
p_multtor_nbd 0.294
p_bond_d 0.026
p_angle_d 0.044
p_planar_d 0.044
p_mcbond_it 2.2
p_mcangle_it 2.9
p_scbond_it 4.3
p_scangle_it 5.1
p_plane_restr 0.016
p_chiral_restr 0.18
p_singtor_nbd 0.168
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1001
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 224

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CCP4 Structure Solution
REFMAC Structure Refinement
Software
Software Name Purpose
REFMAC refinement
CCP4 model building
SCALEPACK data reduction
DENZO data collection