X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
pH 4
Temperature 273.0
Details 40% MPD, 0.1M citric acid pH 4.0, final pH 4, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 273K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 120.08 α = 90
b = 120.08 β = 90
c = 144.08 γ = 90
Symmetry
Space Group I 4

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- 2001-10-21
Diffraction Radiation
Monochromator Protocol
Single crystal, cylindrically bent, Si(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.3 -- ALS 5.0.3

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
2.18 46.12 94.49 -- 0.078 -- 4.11 -- 50043 -- -- 44.79
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)
2.18 2.2 75.52 -- 0.574 1.51 3.26 1308

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 2.18 46.12 -- -- -- 47472 2553 94.22 -- 0.21863 0.21653 0.25759 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 2.18 2.237 -- 172 2747 0.234 0.327 -- 75.29
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.358
Anisotropic B[1][1] -2.2
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 4.41
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 15.276
r_gen_planes_refined 0.005
r_xyhbond_nbd_refined 0.158
r_chiral_restr 0.092
r_bond_refined_d 0.015
r_mcangle_it 3.083
r_angle_refined_deg 1.523
r_mcbond_it 2.073
r_nbd_refined 0.213
r_symmetry_hbond_refined 0.188
r_dihedral_angle_4_deg 16.725
r_scangle_it 8.37
r_dihedral_angle_2_deg 33.071
r_nbtor_refined 0.308
r_dihedral_angle_1_deg 5.935
r_symmetry_vdw_refined 0.215
r_scbond_it 6.057
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4670
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 206

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
MOLREP phasing
REFMAC refinement version: 5.2.0005