X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details 12% PEG 8000, 50 MM HEPES PH 7, 100 MM NACL, 2 MM DTT, 2 MM NAN3

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 88.04 α = 90
b = 145.98 β = 90
c = 152.37 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- 2000-10-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 -- ESRF ID14-2

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
1.95 40 99.2 0.08 -- -- 4.0 -- 71088 -- 3.0 --
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)
1.95 2.0 99.9 0.42 -- 3.3 3.9 --

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 1.95 40.0 -- -- -- 66558 3525 97.8 -- 0.194 0.193 0.225 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 1.95 2.0 -- 258 4819 0.257 0.272 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.89
Anisotropic B[1][1] 0.04
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.97
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.01
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.211
r_scbond_it 1.884
r_mcangle_it 1.263
r_mcbond_it 0.662
r_nbd_refined 0.205
r_gen_planes_other 0.002
r_gen_planes_refined 0.004
r_chiral_restr 0.094
r_dihedral_angle_1_deg 5.387
r_angle_other_deg 0.746
r_angle_refined_deg 1.218
r_bond_other_d 0.002
r_bond_refined_d 0.011
r_nbd_other 0.24
r_nbtor_other 0.083
r_xyhbond_nbd_refined 0.163
r_symmetry_vdw_refined 0.331
r_symmetry_vdw_other 0.31
r_symmetry_hbond_refined 0.168
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5724
Nucleic Acid Atoms 0
Heterogen Atoms 57
Solvent Atoms 435

Software

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