X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop and Macroseeding
pH 7.3
Details THROMBIN-HIRUGEN WAS CRYSTALLIZED FROM 0.1 M SODIUM PHOSPHATE BUFFER AT PH 7.3, 28% PEG 8000 IN HANGING DROPS WITH MACROSEEDING. THE MOL 127 INHIBITOR WAS ADDED BY SOAKING., vapor diffusion - hanging drop and macroseeding

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.85 α = 90
b = 72.41 β = 101
c = 72.97 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS II -- 1995-07-15
Diffraction Radiation
Monochromator Protocol
-- --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH2R -- -- --

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
2.2 60 77.0 0.052 -- -- 2.4 -- 14517 -- 1.0 --
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)
2.2 2.27 54.0 0.147 -- 2.9 -- --

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
-- 2.2 7.0 -- -- -- 13643 -- 76.0 -- -- 0.148 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.0
RMS Deviations
Key Refinement Restraint Deviation
p_transverse_tor 30.0
p_staggered_tor 22.0
p_planar_tor 4.0
p_xyhbond_nbd 0.3
p_multtor_nbd 0.3
p_bond_d 0.015
p_angle_d 0.05
p_planar_d 0.064
p_mcbond_it 1.8
p_mcangle_it 2.6
p_scbond_it 3.2
p_scangle_it 4.4
p_plane_restr 0.037
p_chiral_restr 0.18
p_singtor_nbd 0.24
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2333
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 141

Software

Computing
Computing Package Purpose
R-AXIS Data Reduction (intensity integration)
R-AXIS Data Reduction (data scaling)
PROFFT Structure Refinement
Software
Software Name Purpose
PROFFT refinement
R-AXIS data reduction
R-AXIS data collection