X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 298.0
Details Na Citrate, TEA, DTT, EDTA, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.36 α = 90
b = 70.36 β = 90
c = 210.79 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 125
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2001-09-20
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 1.77 APS 19-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
1.9 50 96.3 0.064 -- -- 12.9 41197 41197 0.0 0.0 --

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 1.9 45.18 0.0 0.0 39121 39121 2076 96.3 0.2053 0.20441 0.20441 0.22298 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 1.9 1.949 -- 109 2025 0.276 0.312 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.073
Anisotropic B[1][1] 0.77
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.77
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.53
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.415
r_scbond_it 2.707
r_bond_refined_d 0.01
r_angle_refined_deg 1.458
r_dihedral_angle_1_deg 3.273
r_dihedral_angle_3_deg 15.836
r_chiral_restr 0.088
r_gen_planes_refined 0.004
r_nbd_refined 0.223
r_xyhbond_nbd_refined 0.209
r_symmetry_vdw_refined 0.305
r_symmetry_hbond_refined 0.266
r_mcbond_it 1.017
r_mcangle_it 1.882
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2605
Nucleic Acid Atoms 0
Heterogen Atoms 29
Solvent Atoms 310

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
AMoRE model building
SCALEPACK data reduction
HKL-2000 data collection