X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Dialysis
pH 7
Temperature 277.0
Details MPD, pH 7.0, Dialysis, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 44.14 α = 91.98
b = 51.31 β = 103.01
c = 93.48 γ = 109.81
Symmetry
Space Group P 1

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2001-11-11
IMAGE PLATE RIGAKU RAXIS IV confocal osmic 2001-07-25
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID 1.0000 APS 17-ID
ROTATING ANODE RIGAKU 1.5418 -- --

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
1.2 20 -- 0.073 0.073 -- 2.25 -- 199442 0.0 0.0 --
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)
1.2 1.24 84.5 0.29 0.29 1.5 1.46 --

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 1.2 20.0 -- -- -- 199422 2017 86.29 -- 0.18772 0.1875 0.20881 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 1.2 1.231 -- 133 14182 0.311 0.315 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model anisotropic
Mean Isotropic B 17.199
Anisotropic B[1][1] 0.48
Anisotropic B[1][2] 0.72
Anisotropic B[1][3] 0.18
Anisotropic B[2][2] 1.32
Anisotropic B[2][3] 0.45
Anisotropic B[3][3] -1.19
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_other 0.108
r_nbd_refined 0.214
r_gen_planes_other 0.013
r_gen_planes_refined 0.01
r_chiral_restr 0.12
r_dihedral_angle_1_deg 6.118
r_angle_other_deg 3.791
r_angle_refined_deg 1.843
r_bond_other_d 0.0
r_bond_refined_d 0.019
r_xyhbond_nbd_refined 0.098
r_symmetry_vdw_refined 0.169
r_symmetry_vdw_other 0.265
r_symmetry_hbond_refined 0.104
r_mcbond_it 1.813
r_mcangle_it 2.454
r_scbond_it 3.138
r_scangle_it 4.551
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.06
Luzzati ESD (R-Free Set) 0.1
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5558
Nucleic Acid Atoms 0
Heterogen Atoms 126
Solvent Atoms 465

Software

Computing
Computing Package Purpose
D*TREK Data Reduction (intensity integration)
D*TREK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.27 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.27 refinement
AMoRE model building
d*trek data reduction
d*trek data collection