X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6
Details METHOD: VAPOUR DIFFUSION / HANGING DROP, PROTEIN: 10 MG/ML IN 10 MM HEPES PH 7.0, RESEVOIR: 10% PEG 4000, 100 MM MES/TRIS PH 6.0, 100 MM AMMONIUM SULFATE, 10 MM CACL2. CRYSTALS GREW APPROX 2 YEARS AFTER SETUP. TRUE CRYSTALLIZATION CONDITIONS PROBABLY DEVIATE FROM THOSE INDICATED

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 95.92 α = 90
b = 55.88 β = 113.07
c = 97.78 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2002-08-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 -- MPG/DESY, HAMBURG BW6

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
1.8 25.1 92.0 0.062 -- -- 6.2 -- 50336 -- -- --
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)
1.8 1.86 84.3 0.385 -- 3.4 4.5 --

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 1.6 91.29 -- -- -- 59440 3170 99.5 -- 0.133 0.131 0.161 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 1.6 1.64 -- 222 4201 0.206 0.27 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.26
Anisotropic B[1][1] -0.74
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.37
Anisotropic B[2][2] 0.78
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.32
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.237
r_nbtor_other 0.094
r_nbd_other 0.265
r_symmetry_vdw_refined 0.186
r_symmetry_vdw_other 0.232
r_bond_other_d 0.002
r_mcangle_it 2.143
r_scbond_it 1.973
r_chiral_restr 0.124
r_metal_ion_refined 0.19
r_gen_planes_refined 0.007
r_gen_planes_other 0.004
r_angle_other_deg 0.857
r_dihedral_angle_1_deg 6.82
r_angle_refined_deg 1.678
r_mcbond_it 1.321
r_nbd_refined 0.315
r_bond_refined_d 0.022
r_xyhbond_nbd_refined 0.236
r_scangle_it 3.205
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3505
Nucleic Acid Atoms 0
Heterogen Atoms 79
Solvent Atoms 702

Software

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