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X-ray structure of LFA-1 I-domain in complex with LFA703 at 2.2A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CQP PDB ENTRY 1CQP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 293 ammonium acetate, sodium acetate, glycerol, PEG4000, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.5 64.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.7 α = 90 b = 116.7 β = 90 c = 82.8 γ = 90
Symmetry Space Group P 43 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 293 IMAGE PLATE MARRESEARCH 1999-09-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM1A 0.80074 ESRF BM1A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.2 8 99.8 0.094 22.7 7.4 28795 28795
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.28 100 0.286 7.8
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 (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 1CQP 2.2 8 27286 27286 1464 99.71 0.16368 0.16138 0.1737 0.20643 0.2174 RANDOM 30.967
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] 0.06 0.06 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.764 r_dihedral_angle_4_deg 15.82 r_dihedral_angle_3_deg 15.333 r_dihedral_angle_1_deg 6.706 r_scangle_it 4.125 r_scbond_it 2.855 r_mcangle_it 1.847 r_mcbond_it 1.581 r_angle_refined_deg 1.512 r_angle_other_deg 0.843
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.764 r_dihedral_angle_4_deg 15.82 r_dihedral_angle_3_deg 15.333 r_dihedral_angle_1_deg 6.706 r_scangle_it 4.125 r_scbond_it 2.855 r_mcangle_it 1.847 r_mcbond_it 1.581 r_angle_refined_deg 1.512 r_angle_other_deg 0.843 r_mcbond_other 0.265 r_symmetry_hbond_refined 0.241 r_nbd_refined 0.209 r_nbd_other 0.184 r_xyhbond_nbd_refined 0.176 r_symmetry_vdw_other 0.176 r_symmetry_vdw_refined 0.123 r_chiral_restr 0.095 r_nbtor_other 0.091 r_metal_ion_refined 0.075 r_bond_refined_d 0.018 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2936 Nucleic Acid Atoms Solvent Atoms 277 Heterogen Atoms 90
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling X-PLOR phasing