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 = 89.91 α = 90
b = 91.89 β = 90
c = 261.17 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
CCD MARRESEARCH MIRRORS 2002-07-15
Diffraction Radiation
Monochromator Protocol
TRIANGULAR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 -- EMBL/DESY, HAMBURG X11

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
2.9 20 93.8 0.095 -- -- 9.9 -- 45607 -- -- --
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)
2.9 3.03 95.4 0.76 -- 1.97 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
OTHER 2.9 15.0 -- -- -- 43051 2239 93.5 -- 0.228 0.224 0.294 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 2.9 2.97 -- 157 3025 0.309 0.392 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 37.77
Anisotropic B[1][1] -1.29
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 6.51
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.22
RMS Deviations
Key Refinement Restraint Deviation
r_xyhbond_nbd_refined 0.149
r_angle_refined_deg 1.293
r_scbond_it 0.903
r_scangle_it 1.565
r_nbd_refined 0.2
r_nbd_other 0.216
r_chiral_restr 0.065
r_gen_planes_refined 0.003
r_mcangle_it 0.609
r_symmetry_vdw_refined 0.189
r_bond_refined_d 0.01
r_bond_other_d 0.002
r_mcbond_it 0.314
r_symmetry_hbond_refined 0.09
r_symmetry_vdw_other 0.194
r_angle_other_deg 0.812
r_dihedral_angle_1_deg 6.317
r_nbtor_other 0.084
r_gen_planes_other 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 12171
Nucleic Acid Atoms 712
Heterogen Atoms 28
Solvent Atoms 57

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