X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Counter Diffusion
pH 8
Temperature 277.0
Details 60% (v/v) MPD, Hepes 15 mM, 1 mM Ac2Cu, pH 8.0, Counter-diffusion, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 31.14 α = 90
b = 90.04 β = 112.99
c = 36.33 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD BRUKER SMART 6000 Montel Optics 2005-11-28
Diffraction Radiation
Monochromator Protocol
Ni Filter SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE BRUKER AXS MICROSTAR 1.5418 -- --

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
2.45 18.67 61.9 -- 0.079 -- 1.19 4223 4223 -- -- 31.13
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)
2.45 2.5 47.8 -- 0.3084 3.06 0.61 189

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 2.45 16.44 -- -- -- 4013 193 62.0 -- 0.18527 0.17983 0.30495 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 2.45 2.512 -- 11 220 0.228 0.575 -- 48.23
X Ray Diffraction 2.512 2.579 -- 11 -- 0.225 0.349 -- 49.79
X Ray Diffraction 2.579 2.652 -- 14 -- 0.198 0.255 -- 57.33
X Ray Diffraction 2.652 2.732 -- 14 -- 0.228 0.293 -- 66.67
X Ray Diffraction 2.732 2.819 -- 15 -- 0.209 0.313 -- 64.81
X Ray Diffraction 2.819 2.915 -- 18 -- 0.247 0.421 -- 71.679
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.073
Anisotropic B[1][1] -1.21
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.4
Anisotropic B[2][2] 0.56
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.33
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 0.742
r_nbd_refined 0.194
r_bond_refined_d 0.012
r_mcbond_it 0.867
r_dihedral_angle_3_deg 15.722
r_symmetry_vdw_refined 0.215
r_symmetry_hbond_refined 0.203
r_nbtor_refined 0.291
r_dihedral_angle_4_deg 13.315
r_angle_refined_deg 1.2
r_dihedral_angle_1_deg 5.47
r_dihedral_angle_2_deg 39.803
r_scangle_it 1.132
r_xyhbond_nbd_refined 0.174
r_chiral_restr 0.074
r_gen_planes_refined 0.003
r_mcangle_it 1.399
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1685
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 91

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
PROTEUM PLUS data reduction version: 2
SAINT data scaling
SADABS data scaling
XPREP data reduction
MOLREP phasing