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LFA-1 I domain bound to inhibitors
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LFA PDB entry 1LFA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.5 5% PEG400, 20% PEG3350, 50MM K2HPO4 PH 4.5, 10MM MGCL2, 1MM INHIBITOR, pH 4.50, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.24 45.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.062 α = 90 b = 69.608 β = 90 c = 72.363 γ = 90
Symmetry Space Group P 21 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 180 IMAGE PLATE RIGAKU RAXIS IV++ Blue confocal 2003-02-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.54
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 1.8 35 0.107 34005
Refinement Statistics Diffraction ID Structure Solution 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB entry 1LFA 2 32.43 23427 1196 91.1 0.219 0.215 0.2269 0.287 23.4
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] -0.01 0.14 -0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.371 r_dihedral_angle_4_deg 24.978 r_dihedral_angle_3_deg 15.193 r_dihedral_angle_1_deg 5.817 r_sphericity_free 3.324 r_scangle_it 2.449 r_scbond_it 2.331 r_rigid_bond_restr 2.298 r_sphericity_bonded 1.493 r_angle_refined_deg 1.363
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.371 r_dihedral_angle_4_deg 24.978 r_dihedral_angle_3_deg 15.193 r_dihedral_angle_1_deg 5.817 r_sphericity_free 3.324 r_scangle_it 2.449 r_scbond_it 2.331 r_rigid_bond_restr 2.298 r_sphericity_bonded 1.493 r_angle_refined_deg 1.363 r_mcangle_it 0.955 r_mcbond_it 0.613 r_nbtor_refined 0.31 r_symmetry_hbond_refined 0.237 r_nbd_refined 0.216 r_xyhbond_nbd_refined 0.204 r_symmetry_vdw_refined 0.203 r_chiral_restr 0.094 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2938 Nucleic Acid Atoms Solvent Atoms 368 Heterogen Atoms 84
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling