X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details PEG3000, lithium nitrate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 126.87 α = 90
b = 246.86 β = 90
c = 87.38 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2003-09-07
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.9393 ESRF ID14-4

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
2.4 40 97.7 0.073 -- -- 3.7 107630 105155 -999.0 -3.7 --
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)
2.4 2.53 90.2 0.331 -- 2.5 2.8 --

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
MAD and SIRAS 2.4 40.0 -- -- 107630 101981 3123 97.37 -- 0.21653 0.21476 0.27527 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 2.4 2.462 -- 201 6602 0.291 0.361 -- 86.66
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 45.606
Anisotropic B[1][1] -1.61
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.47
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.09
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.241
r_scbond_it 1.944
r_scangle_it 3.103
r_chiral_restr 0.117
r_angle_refined_deg 1.201
r_dihedral_angle_1_deg 8.963
r_dihedral_angle_4_deg 20.788
r_xyhbond_nbd_refined 0.188
r_nbd_refined 0.246
r_mcbond_it 0.73
r_mcangle_it 1.242
r_bond_refined_d 0.012
r_symmetry_vdw_refined 0.204
r_nbtor_refined 0.318
r_dihedral_angle_2_deg 36.478
r_dihedral_angle_3_deg 20.813
r_gen_planes_refined 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 17632
Nucleic Acid Atoms 0
Heterogen Atoms 146
Solvent Atoms 611

Software

Software
Software Name Purpose
REFMAC refinement
PDB_EXTRACT data extraction version: 1.700
MOSFLM data reduction
CCP4 data scaling version: (SCALA)
SOLVE phasing