X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9
Temperature 277.0
Details 10-20% PEG 4K, 3mM KPi, 20mM BME, 0.1M tris, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 123.79 α = 90
b = 123.79 β = 90
c = 284.77 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2007-02-24
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 1.000 APS 22-ID

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
2.67 50 97.1 0.207 -- -- 7.1 -- 72672 0.0 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)
2.67 2.77 94.9 0.647 -- 15.5 3.1 --

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
-- 2.67 107.21 -- -- -- 67080 3559 97.2 -- 0.21215 0.20856 0.27947 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.67 2.739 -- 248 4813 0.305 0.402 -- 95.15
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 44.228
Anisotropic B[1][1] -1.67
Anisotropic B[1][2] -0.83
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.67
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.5
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 6.258
r_scbond_it 4.233
r_mcangle_it 2.927
r_mcbond_it 1.774
r_nbd_refined 0.295
r_gen_planes_refined 0.014
r_chiral_restr 0.192
r_dihedral_angle_4_deg 22.205
r_dihedral_angle_3_deg 23.027
r_dihedral_angle_2_deg 39.528
r_dihedral_angle_1_deg 9.186
r_angle_refined_deg 3.06
r_bond_refined_d 0.038
r_nbtor_refined 0.355
r_xyhbond_nbd_refined 0.222
r_symmetry_vdw_refined 0.22
r_symmetry_hbond_refined 0.2
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 13619
Nucleic Acid Atoms 0
Heterogen Atoms 33
Solvent Atoms 182

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.000 data extraction
REFMAC5 refinement
HKL data processing