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X-ray crystal structure of coil 1A of human vimentin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GK7 DIMERIC MODEL BUILT FROM PDB ENTRIES 1GK7 AND 1D7M experimental model PDB 1D7M DIMERIC MODEL BUILT FROM PDB ENTRIES 1GK7 AND 1D7M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 298 20 % PEG, 33 % isopropanol, 0.1 M trisodium citrate, pH 5.6, vapour diffusion, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.9 36.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.496 α = 90 b = 35.496 β = 90 c = 108.022 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD OXFORD ONYX CCD MULTI-LAYER OPTICS 2006-01-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE OXFORD DIFFRACTION ENHANCE ULTRA
Data Collection Overall ID # 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 1.77 11.65 87.5 0.099 0.099 7 9.3 6364 6 13.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.77 1.86 43.8 0.414 0.414 1.6 2.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT DIMERIC MODEL BUILT FROM PDB ENTRIES 1GK7 AND 1D7M 1.83 11.65 6136 6136 437 93 0.253 0.2509 0.295 0.2488 RANDOM 33.19
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 3.37 3.37 -6.75
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 7.71 c_scbond_it 5.95 c_mcangle_it 4.67 c_mcbond_it 3.46 c_angle_deg 1.2 c_bond_d 0.005 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 7.71 c_scbond_it 5.95 c_mcangle_it 4.67 c_mcbond_it 3.46 c_angle_deg 1.2 c_bond_d 0.005 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 663 Nucleic Acid Atoms Solvent Atoms 24 Heterogen Atoms
Software Software Software Name Purpose SCALA data scaling PHASER phasing CNS refinement PDB_EXTRACT data extraction CrysalisPro data reduction REFMAC refinement