X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.5
Temperature 295.0
Details 0.1M Na Acetate, 30% Ammonium Sulfate, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 151 α = 90
b = 151 β = 90
c = 68 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH mirror 2002-04-12
Diffraction Radiation
Monochromator Protocol
Si(111) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-BM 1.000 APS 17-BM

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
2.8 20 98.5 0.055 -- -- 4.9 21998 21998 0.0 -3.0 71.3
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)
2.8 2.9 97.1 0.423 -- 2.1 4.1 2412

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
MAD 2.8 10.0 -- 0.0 20431 20431 1106 100.0 0.19592 0.19592 0.19285 0.25179 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 2.804 2.871 -- 72 1353 0.398 0.46 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 64.4
Anisotropic B[1][1] 0.12
Anisotropic B[1][2] 0.06
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.12
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.18
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 10.384
r_bond_refined_d 0.013
r_angle_refined_deg 1.644
r_dihedral_angle_1_deg 7.296
r_chiral_restr 0.104
r_gen_planes_refined 0.004
r_nbd_refined 0.317
r_xyhbond_nbd_refined 0.229
r_symmetry_vdw_refined 0.324
r_symmetry_hbond_refined 0.151
r_mcbond_it 4.571
r_mcangle_it 7.674
r_scbond_it 8.741
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.298
Luzzati ESD (R-Free Set) 0.264
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2530
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 215

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MLPHARE Structure Solution
REFMAC 5.1 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement