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Structure of anti-collagen type II FAb CIIC1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FSK PDB ENTRY 1FSK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 0.2 SODIUM-FORMATE, 20 % PEG 3350, PH 7.2 HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.54 51.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.6 α = 90 b = 78 β = 83.1 c = 99.5 γ = 90
Symmetry Space Group P 1 21 1
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 ADSC CCD MIRRORS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 2.1 25 99.7 0.12 10.66 3.6 191077 3
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 2.1 2.21 100 0.4 4.04
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 PDB ENTRY 1FSK 2.1 24.42 50517 2659 100 0.216 0.212 0.231 0.289 0.3058 RANDOM 31.48
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] -0.48 -2.52 -0.73 1.82
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.716 r_dihedral_angle_3_deg 16.791 r_dihedral_angle_4_deg 14.791 r_dihedral_angle_1_deg 7.214 r_scangle_it 2.873 r_scbond_it 1.97 r_angle_refined_deg 1.696 r_mcangle_it 1.237 r_mcbond_it 0.765 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.716 r_dihedral_angle_3_deg 16.791 r_dihedral_angle_4_deg 14.791 r_dihedral_angle_1_deg 7.214 r_scangle_it 2.873 r_scbond_it 1.97 r_angle_refined_deg 1.696 r_mcangle_it 1.237 r_mcbond_it 0.765 r_nbtor_refined 0.304 r_nbd_refined 0.219 r_symmetry_vdw_refined 0.207 r_xyhbond_nbd_refined 0.186 r_symmetry_hbond_refined 0.177 r_chiral_restr 0.114 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6642 Nucleic Acid Atoms Solvent Atoms 522 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing