X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.6
Details 25 MM NA ACETATE, 25 MM NA CITRATE PH 5.6, 7% PEG 4000, 30% GLYCEROL

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 72.24 α = 90
b = 145.34 β = 90
c = 159.46 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 PREMIRROR, TRIANGULAR MONOCHROMATOR, BENT MIRROR --
Diffraction Radiation
Monochromator Protocol
MIRROR 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
1.89 20 99.6 0.048 -- -- 5.34 -- 134420 -- -- --
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)
1.89 2.0 99.9 0.3566 -- 4.32 4.15 --

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
SIRAS 1.89 20.0 -- -- -- 125806 6720 99.2 -- 0.171 0.17 0.191 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 1.9 1.94 -- 712 8206 0.23 0.235 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.25
Anisotropic B[1][1] -1.65
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.6
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 6.073
r_scbond_it 4.032
r_mcangle_it 3.187
r_mcbond_it 1.926
r_nbd_refined 0.222
r_gen_planes_other 0.014
r_gen_planes_refined 0.012
r_chiral_restr 0.113
r_dihedral_angle_1_deg 6.654
r_angle_other_deg 0.903
r_angle_refined_deg 1.7
r_bond_other_d 0.002
r_bond_refined_d 0.02
r_nbd_other 0.26
r_nbtor_other 0.087
r_xyhbond_nbd_refined 0.135
r_metal_ion_refined 0.143
r_symmetry_vdw_refined 0.182
r_symmetry_vdw_other 0.261
r_symmetry_hbond_refined 0.208
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7637
Nucleic Acid Atoms 0
Heterogen Atoms 4
Solvent Atoms 760

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SHELXD, DM Structure Solution
REFMAC 5.1.19 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.19 refinement
DM model building
SHELXD model building