X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 289.0
Details Protein: 18mg/ml HMK, 1M NaCl, 50mM Tris pH 8.5, 50mM BME, Well: 400mM NaCl, 50mM Tris pH 8.5, 50mM BME, VAPOR DIFFUSION, HANGING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.4 α = 90
b = 57.4 β = 90
c = 96.95 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV -- 1997-06-12
Diffraction Radiation
Monochromator Protocol
-- 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
1.37 30 99.7 0.064 -- -- 4.5 34781 31694 0.0 0.0 17.4
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)
1.37 1.39 99.9 0.475 -- -- 4.0 1709

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
-- 1.37 30.0 0.0 0.0 34781 31694 5353 16.9 0.166 0.159 0.159 0.206 RANDOM
RMS Deviations
Key Refinement Restraint Deviation
s_approx_iso_adps 0.17
s_similar_adp_cmpnt 0.026
s_rigid_bond_adp_cmpnt 0.004
s_anti_bump_dis_restr 0.023
s_non_zero_chiral_vol 0.077
s_zero_chiral_vol 0.058
s_from_restr_planes 0.0228
s_similar_dist 0.0
s_angle_d 0.034
s_bond_d 0.011
Coordinate Error
Parameter Value
Number Disordered Residues 33.0
Occupancy Sum Hydrogen 1100.02
Occupancy Sum Non Hydrogen 1292.63
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1113
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 176

Software

Computing
Computing Package Purpose
R-AXIS Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE Structure Solution
SHELXL-97 Structure Refinement
Software
Software Name Purpose
SHELXL-97 refinement
SOLVE model building
SCALEPACK data reduction
R-AXIS data collection