X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 275.0
Details initial concentration in droplet: 0.24 mM dna, 8.57 mM calcium acetate, 0.11 mM streptonigrin, 10-15% MPD, 45% final MPD concentration in reservoir. Solutions were unbuffered, VAPOR DIFFUSION, SITTING DROP, temperature 275.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 31.85 α = 90
b = 25.1 β = 114.87
c = 34.14 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 1998-11-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X8C -- NSLS X8C

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
0.99 8 97.5 0.044 -- -- 5.56 13619 13619 -- -1.0 5.54
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)
0.985 1.016 94.9 0.104 -- 9.1 -- 1322

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 0.985 8.0 0.0 0.0 13619 13619 676 97.5 -- -- 0.1183 0.1405 random
RMS Deviations
Key Refinement Restraint Deviation
s_approx_iso_adps 0.063
s_similar_adp_cmpnt 0.019
s_rigid_bond_adp_cmpnt 0.008
s_anti_bump_dis_restr 0.06
s_angle_d 0.046
s_bond_d 0.022
Coordinate Error
Parameter Value
Number Disordered Residues 22.0
Occupancy Sum Hydrogen 113.0
Occupancy Sum Non Hydrogen 270.8
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 202
Heterogen Atoms 16
Solvent Atoms 80

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
X-PLOR Structure Solution
SHELXL-97 Structure Refinement
Software
Software Name Purpose
SHELXL-97 refinement
X-PLOR model building