X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8.5
Temperature 291.0
Details 30% PEG 4000, 0.1M Tris.HCl, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.17 α = 90
b = 74.55 β = 96.81
c = 56.85 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
IMAGE PLATE MAR scanner 345 mm plate -- 2011-11-01
Diffraction Radiation
Monochromator Protocol
Varimax-HF Multilayer mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 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
2.23 39.64 93.1 -- 0.096 -- 6.5 18138 18138 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)
2.21 2.33 73.6 0.351 0.351 2.1 5.8 --

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 2.23 24.17 -- -- 18121 -- 1368 98.6 -- 0.172 0.168 0.22 --
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 2.23 2.37 -- 221 2730 0.1914 0.2828 -- 98.61
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic with TLS
Mean Isotropic B 28.56
Anisotropic B[1][1] 7.3967
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.3815
Anisotropic B[2][2] -9.129
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.7322
RMS Deviations
Key Refinement Restraint Deviation
t_bond_d 0.01
t_angle_deg 1.09
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.23
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3227
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 102

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 3.3.20
AMoRE phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.10
MAR345dtb data collection
BUSTER refinement version: 2.10.0