X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8
Details PROTEIN WAS CRYSTALLIZED FROM 9% PEG 3350, 0.1 M HEPES PH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.27 α = 90
b = 65.17 β = 90
c = 209.49 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD (QUANTUM 315) ADSC KIRKPATRICK BAEZ BIMORPH MIRROR PAIR 2012-03-10
Diffraction Radiation
Monochromator Protocol
SI (111) DOUBLE CRYSTAL MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I02 -- DIAMOND I02

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
2.1 55.3 97.3 0.04 -- -- 3.4 -- 29593 -- 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)
2.07 2.13 82.0 0.36 -- 2.0 2.1 --

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 2.07 55.33 -- -- -- 29593 1570 97.05 -- 0.19498 0.19255 0.24039 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 2.071 2.125 -- 100 1638 0.264 0.355 -- 79.72
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 37.003
Anisotropic B[1][1] -0.55
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.39
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.84
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.004
r_gen_planes_refined 0.009
r_chiral_restr 0.104
r_dihedral_angle_4_deg 18.8
r_dihedral_angle_3_deg 17.332
r_dihedral_angle_2_deg 31.306
r_dihedral_angle_1_deg 6.532
r_angle_other_deg 1.377
r_angle_refined_deg 1.875
r_bond_other_d 0.005
r_bond_refined_d 0.017
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3638
Nucleic Acid Atoms 0
Heterogen Atoms 93
Solvent Atoms 147

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.6.0117 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.6.0117 refinement
PHASER model building