X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details HANGING DROP: 5 MICROL PROTEIN + 5 MICROL RESEVOIR, PROTEIN: 10 MG/ML IN 10 MM HEPES PH 7.5, 3 MM DTT, 150 MM NACL, 0.01% (V/V) C8E4 RESEVOIR: 22% (W/V) PEG10000, 100 MM HEPES PH 7.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 114.04 α = 90
b = 114.04 β = 90
c = 76.46 γ = 120
Symmetry
Space Group P 63

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2003-04-15
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 -- BESSY 14.1

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
2.07 50 99.1 0.066 -- -- 9.4 -- 1440548 -- -- --
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 2.11 96.8 0.182 -- 10.2 8.8 --

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
MAD 2.07 100.0 -- -- -- 32527 1735 99.0 -- 0.155 0.154 0.187 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 2.07 2.12 -- 133 2334 0.158 0.215 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.76
Anisotropic B[1][1] 0.75
Anisotropic B[1][2] 0.38
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.75
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.13
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.913
r_scbond_it 2.638
r_mcangle_it 1.41
r_mcbond_it 0.784
r_nbd_refined 0.304
r_gen_planes_other 0.011
r_gen_planes_refined 0.009
r_chiral_restr 0.11
r_dihedral_angle_1_deg 6.404
r_angle_other_deg 1.019
r_angle_refined_deg 2.109
r_bond_other_d 0.004
r_bond_refined_d 0.036
r_nbd_other 0.255
r_nbtor_other 0.101
r_xyhbond_nbd_refined 0.219
r_symmetry_vdw_refined 0.088
r_symmetry_vdw_other 0.304
r_symmetry_hbond_refined 0.222
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3524
Nucleic Acid Atoms 0
Heterogen Atoms 62
Solvent Atoms 396

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AUTOSHARP Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement
AUTOSHARP model building