X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5
Temperature 298.0
Details sodium formate, disodium citrate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 110.47 α = 90
b = 110.47 β = 90
c = 123.99 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 1999-02-25
Diffraction Radiation
Monochromator Protocol
-- MAD
-- MAD
-- MAD
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X9B -- NSLS X9B

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 15 98.8 0.039 -- -- 11.4 345321 30366 2.0 2.0 43.2
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 2.07 98.4 0.491 -- -- 5.2 15345

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
MULTIWAVELENGTH ANOMALOUS DIFFRACTION USING SELENOMETHIONINE (SELENIUM) AS ANOMALOUS SCATTERER 2.0 15.0 0.0 0.0 345321 26629 2950 86.9 0.2375 0.2375 0.2377 0.3212 RANDOM
RMS Deviations
Key Refinement Restraint Deviation
s_bond_d 0.006
s_approx_iso_adps 0.0
s_similar_dist 0.0
s_similar_adp_cmpnt 0.1
s_rigid_bond_adp_cmpnt 0.0
s_anti_bump_dis_restr 0.01
s_zero_chiral_vol 0.029
s_angle_d 0.022
s_from_restr_planes 0.023
s_non_zero_chiral_vol 0.036
Coordinate Error
Parameter Value
Occupancy Sum Hydrogen 0.0
Occupancy Sum Non Hydrogen 2369.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2105
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 264

Software

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