☰ Navigation Tabs
Crystal structure the Fab fragment of Efalizumab in complex with LFA-1 I domain, Form I
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A0Q 1A0Q, 1ZOP experimental model PDB 1ZOP 1A0Q, 1ZOP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.3 277 0.1M sodium citric, 0.2M sodium potassium tartrate, 1.6M ammonium sulfate, pH 5.3, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.75 55.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.719 α = 90 b = 81.696 β = 90 c = 281.882 γ = 90
Symmetry Space Group P 21 21 21
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 QUANTUM 210 mirrors 2008-05-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.0000 Photon Factory AR-NW12A
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 2.8 50 98.1 0.118 0.118 21.1 12.5 37885 37165 1 1
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) 2.8 2.9 84.7 0.343 0.343 2.7 4.8 3139
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) 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 1A0Q, 1ZOP 2.8 50 1 1 36009 35307 1850 98.05 0.22672 0.22475 0.2329 0.26438 0.2422 RANDOM 31.434
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] 0.02 1.61 -1.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.057 r_dihedral_angle_3_deg 19.127 r_dihedral_angle_4_deg 14.871 r_dihedral_angle_1_deg 5.463 r_scangle_it 2.016 r_mcangle_it 1.539 r_scbond_it 1.302 r_rigid_bond_restr 1.275 r_angle_refined_deg 1.087 r_mcbond_it 0.855
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.057 r_dihedral_angle_3_deg 19.127 r_dihedral_angle_4_deg 14.871 r_dihedral_angle_1_deg 5.463 r_scangle_it 2.016 r_mcangle_it 1.539 r_scbond_it 1.302 r_rigid_bond_restr 1.275 r_angle_refined_deg 1.087 r_mcbond_it 0.855 r_sphericity_free 0.78 r_sphericity_bonded 0.406 r_nbtor_refined 0.305 r_symmetry_vdw_refined 0.231 r_nbd_refined 0.196 r_symmetry_hbond_refined 0.153 r_xyhbond_nbd_refined 0.125 r_chiral_restr 0.085 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9448 Nucleic Acid Atoms Solvent Atoms 356 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection CNS refinement REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling CNS phasing