X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details 12-14 % PEG 6000, 150-300 MM NACL 25 MM HEPES PH 7-8, 10 MM MGCL2, 100-150 MICROM ADP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 89.49 α = 90
b = 91.81 β = 90
c = 260.05 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH MIRRORS 2001-09-15
Diffraction Radiation
Monochromator Protocol
TRIANGULAR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B -- EMBL/DESY, HAMBURG BW7B

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
2.4 22 98.4 0.089 -- -- 6.7 -- 82874 -- -- --
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)
2.4 2.44 86.1 0.614 -- 1.58 2.8 --

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
OTHER 2.4 15.0 -- -- -- 80953 1604 98.2 -- 0.206 0.205 0.253 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 2.4 2.46 -- 112 5018 0.284 0.343 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.02
Anisotropic B[1][1] -2.64
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.8
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.16
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.002
r_mcbond_it 0.469
r_bond_refined_d 0.012
r_scbond_it 1.439
r_nbtor_other 0.086
r_symmetry_hbond_refined 0.134
r_mcangle_it 0.904
r_nbd_refined 0.197
r_symmetry_vdw_other 0.238
r_nbd_other 0.226
r_bond_other_d 0.002
r_angle_refined_deg 1.362
r_symmetry_vdw_refined 0.177
r_gen_planes_refined 0.004
r_chiral_restr 0.07
r_xyhbond_nbd_refined 0.173
r_dihedral_angle_1_deg 6.2
r_scangle_it 2.416
r_angle_other_deg 0.832
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 12171
Nucleic Acid Atoms 654
Heterogen Atoms 28
Solvent Atoms 380

Software

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