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Crystal structures of homooligomers of collagen type IV. alpha2NC1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LI1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 22% polyvinylpyrrolidone K15, 0.1M Na2SO4 and Mes pH 6.5
Crystal Properties Matthews coefficient Solvent content 3.21 61.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.33 α = 90 b = 94.33 β = 90 c = 225.618 γ = 90
Symmetry Space Group I 4 2 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 PIXEL DECTRIS PILATUS3 S 6M 2015-06-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.979 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.5 112.809 100 0.134 0.137 0.027 24.1 25.2 18124 18124
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.64 100 1.688 1.688 1.721 0.333 0.5 26.4 2593
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (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 1LI1 2.5 112.81 17196 924 99.94 0.2477 0.2461 0.2496 0.2794 0.2735 RANDOM 62.084
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] 0.3 0.3 -0.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.654 r_dihedral_angle_3_deg 16.394 r_dihedral_angle_4_deg 11.237 r_dihedral_angle_1_deg 7.466 r_angle_refined_deg 1.338 r_angle_other_deg 0.902 r_chiral_restr 0.072 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.654 r_dihedral_angle_3_deg 16.394 r_dihedral_angle_4_deg 11.237 r_dihedral_angle_1_deg 7.466 r_angle_refined_deg 1.338 r_angle_other_deg 0.902 r_chiral_restr 0.072 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2739 Nucleic Acid Atoms Solvent Atoms 55 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PHASER phasing PDB_EXTRACT data extraction XDS data reduction PHASER phasing