X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
pH 5
Temperature 293.0
Details 20% PEG-6000, 0.1M citric acid pH 5.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 63.51 α = 90
b = 117.12 β = 90
c = 140.85 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 flat mirror 2002-01-10
Diffraction Radiation
Monochromator Protocol
single crystal Si(311) bent monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 -- SSRL BL11-1

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
2.5 41.17 85.4 -- 0.12 -- 2.5 31633 31633 -- -- 51.32
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)
2.5 2.64 42.7 -- 0.229 1.6 1.4 2231

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
SAD, MOLECULAR REPLACEMENT 2.5 41.17 -- -- -- 30035 1562 85.03 -- 0.19662 0.19404 0.2468 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 2.5 2.565 -- 50 934 0.264 0.33 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 15.52
Anisotropic B[1][1] -1.87
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -6.16
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 8.03
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_vdw_refined 0.241
r_symmetry_hbond_refined 0.487
r_bond_refined_d 0.018
r_xyhbond_nbd_refined 0.031
r_dihedral_angle_4_deg 22.795
r_angle_refined_deg 1.755
r_bond_other_d 0.002
r_nbd_other 0.189
r_dihedral_angle_2_deg 35.365
r_mcangle_it 1.216
r_symmetry_vdw_other 0.312
r_scangle_it 2.774
r_mcbond_it 0.705
r_scbond_it 1.648
r_angle_other_deg 0.944
r_nbtor_other 0.089
r_gen_planes_refined 0.006
r_nbd_refined 0.204
r_chiral_restr 0.095
r_dihedral_angle_1_deg 6.747
r_dihedral_angle_3_deg 20.263
r_gen_planes_other 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7165
Nucleic Acid Atoms 0
Heterogen Atoms 35
Solvent Atoms 161

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 4.2)
MOLREP phasing
REFMAC refinement version: 5.1.9999
CCP4 data scaling version: (SCALA)