☰ Navigation Tabs
Crystal structure of anti-tissue factor antibody 10H10
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VGE PDB ENTRIES 1VGE, 1MVU, AND 1D5I experimental model PDB 1MVU PDB ENTRIES 1VGE, 1MVU, AND 1D5I experimental model PDB 1D5I PDB ENTRIES 1VGE, 1MVU, AND 1D5I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 0.1 M cacodylate, pH 6.5, 24% PEG8000, 1 M sodium acetate, 5% PEG400, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.52 51.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.77 α = 90 b = 135.51 β = 90 c = 88.25 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 CCD RIGAKU SATURN 944 VARIMAX HF 2007-09-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.9 30 99.4 0.06 26.3 9.5 38664 38664 -3 27.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.95 95.3 0.365 4.2 4.8
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-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRIES 1VGE, 1MVU, AND 1D5I 1.9 15 37585 37585 997 99.4 0.2058 0.2058 0.20479 0.24276 0.2211 RANDOM 32.9
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] 0.58 -0.77 0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.257 r_scangle_it 23.101 r_scbond_it 21.428 r_dihedral_angle_4_deg 12.781 r_dihedral_angle_3_deg 12.134 r_dihedral_angle_1_deg 5.973 r_mcangle_it 4.263 r_mcbond_it 2.577 r_angle_refined_deg 1.059 r_chiral_restr 0.067
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.257 r_scangle_it 23.101 r_scbond_it 21.428 r_dihedral_angle_4_deg 12.781 r_dihedral_angle_3_deg 12.134 r_dihedral_angle_1_deg 5.973 r_mcangle_it 4.263 r_mcbond_it 2.577 r_angle_refined_deg 1.059 r_chiral_restr 0.067 r_bond_refined_d 0.007 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3402 Nucleic Acid Atoms Solvent Atoms 347 Heterogen Atoms 5
Software Software Software Name Purpose StructureStudio data collection AMoRE phasing REFMAC refinement XDS data reduction XDS data scaling