X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 293.0
Details PEG6000, Glycerol, PH6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 64.6 α = 90
b = 99.9 β = 91.6
c = 183 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 315r MIRRORS 2006-04-09
Diffraction Radiation
Monochromator Protocol
SI(111) MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 1.0 ESRF ID23-1

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
2.4 25 95.3 0.095 0.095 -- 4.6 90034 86780 0.0 0.0 42.8
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 2.5 80.1 0.24 0.24 4.4 2.3 10437

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 2.4 24.99 0.0 0.0 0 82430 4350 95.43 -- 0.152 0.15 0.194 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 2.506 -- 478 8324 0.182 0.242 -- 80.2
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.66
Anisotropic B[1][1] 3.52
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.63
Anisotropic B[2][2] -0.63
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.86
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.204
r_gen_planes_refined 0.004
r_symmetry_vdw_refined 0.193
r_mcbond_it 0.969
r_angle_refined_deg 1.192
r_chiral_restr 0.078
r_dihedral_angle_3_deg 14.421
r_xyhbond_nbd_refined 0.151
r_scbond_it 2.612
r_dihedral_angle_1_deg 5.597
r_bond_refined_d 0.01
r_nbtor_refined 0.305
r_scangle_it 3.666
r_mcangle_it 1.429
r_nbd_refined 0.213
r_dihedral_angle_2_deg 35.58
r_dihedral_angle_4_deg 15.04
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 18417
Nucleic Acid Atoms 0
Heterogen Atoms 144
Solvent Atoms 850

Software

Software
Software Name Purpose
AMoRE phasing
REFMAC refinement version: 5.2.0019
ADSC data collection version: Quantum
XDS data reduction
XDS data scaling