X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7
Details PROTEIN-DNA COMPLEX WAS CRYSTALLIZED USING A RESERVOIR CONTAINING 13.8% PEG 3350, 360 MM SODIUM ACETATE, AND 50 MM IMIDAZOLE, PH 7.0., VAPOR DIFFUSION

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 52.77 α = 90
b = 79.39 β = 106.35
c = 54.62 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH MIRRORS 1996-11-14
Diffraction Radiation
Monochromator Protocol
SI(111) CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 -- SSRL BL7-1

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
2.4 20 97.0 -- 0.047 -- 2.9 -- 16536 0.0 0.0 --
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)
2.4 2.49 96.9 -- 0.27 -- -- --

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 2.4 20.0 -- 0.0 16536 16536 -- 97.0 -- -- 0.253 -- --
RMS Deviations
Key Refinement Restraint Deviation
t_nbd 0.019
t_it 6.5
t_gen_planes 0.007
t_trig_c_planes 0.011
t_incorr_chiral_ct 0.0
t_dihedral_angle_d 22.0
t_angle_deg 2.9
t_bond_d 0.02
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2653
Nucleic Acid Atoms 632
Heterogen Atoms 2
Solvent Atoms 81

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MERLOT Structure Solution
TNT V. 5-D Structure Refinement
Software
Software Name Purpose
TNT version: 5D refinement
MERLOT model building
SCALEPACK data reduction
DENZO data collection