X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 4.6
Details VAPOUR DIFFUSION AT ROOM TEMP DROP CONTAINS 1.5 MICROLITER OF PROTEIN SOLUTION (10MG/ML) AND 1.5 MICROLITER OF MOTHER LIQUOR. MOTHER LIQUOR CONTAINS 1M AMMONIUM SULFATE, 0.17M GUANIDINE HYDROCHLORIDE, 0.02M KCL, 0.1M ACETATE PH 4.6.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 107.74 α = 90
b = 285.23 β = 90
c = 91.68 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
-- -- -- 2003-03-15
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 1.0092, 1.0075, 1.0015, 0.8856 ESRF ID14-4

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 10 98.4 0.065 -- -- 10.0 -- 93248 -- -- 15.6
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)
2.0 2.1 84.7 0.37 -- 1.23 3.5 --

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
MAD 2.0 14.4 -- 0.0 -- 88501 4690 93.3 -- 0.195 0.195 0.23 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 2.0 2.13 -- 662 12234 0.301 0.31 0.012 81.9
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 28.7
Anisotropic B[1][1] 17.24
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -8.15
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -9.09
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 2.84
c_scbond_it 1.95
c_mcangle_it 1.9
c_mcbond_it 1.21
c_improper_angle_d 0.86
c_bond_d 0.005
c_angle_deg 1.3
c_dihedral_angle_d 23.8
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.22
Luzzati Sigma A (Observed) 0.32
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.27
Luzzati Sigma A (R-Free Set) 0.31
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7859
Nucleic Acid Atoms 0
Heterogen Atoms 117
Solvent Atoms 938

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SHARP Structure Solution
CNS 1.1 Structure Refinement
Software
Software Name Purpose
CNS version: 1.1 refinement
SHARP model building