X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 298.0
Details 200 mM ammonium tartrate, 20% (w/v) PEG3350, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 96.43 α = 90
b = 256.08 β = 109.47
c = 126.01 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2007-07-27
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X4A 0.9795 NSLS X4A

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
2.8 30 98.6 0.087 -- -- 3.4 145707 131856 2.0 2.0 --
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)
2.8 2.9 97.4 0.416 -- -- 3.0 --

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 2.8 30.0 -- -- 138831 131856 6975 98.48 -- 0.21724 0.21458 0.2676 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 2.8 2.872 -- 496 9448 0.34 0.446 -- 96.51
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 60.705
Anisotropic B[1][1] 1.01
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.92
Anisotropic B[2][2] -2.52
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.79
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.349
r_scbond_it 0.786
r_mcangle_it 0.69
r_mcbond_it 0.38
r_nbd_refined 0.202
r_gen_planes_refined 0.003
r_chiral_restr 0.076
r_dihedral_angle_4_deg 18.358
r_dihedral_angle_3_deg 18.792
r_dihedral_angle_2_deg 38.648
r_dihedral_angle_1_deg 5.288
r_angle_refined_deg 1.106
r_bond_refined_d 0.008
r_nbtor_refined 0.304
r_xyhbond_nbd_refined 0.134
r_symmetry_vdw_refined 0.155
r_symmetry_hbond_refined 0.194
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 34288
Nucleic Acid Atoms 0
Heterogen Atoms 150
Solvent Atoms 0

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
Molrep Structure Solution
REFMAC 5.2.0003 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.004 data extraction
REFMAC5 version: 5.2.0003 refinement
HKL data processing