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I domain from human integrin alpha1-beta1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GCY PDB ENTRY 1GCY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 295 PEG 6000, tris, sodium acetate, glycerol, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2 38.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.471 α = 90 b = 97.601 β = 103.63 c = 53.094 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 MARRESEARCH Bent mirror 2002-10-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.8110 EMBL/DESY, HAMBURG X11
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 1.87 25 95.8 0.056 15.6 3.7 29394 29394
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 1.87 2 88.7 0.294 4.5 3.2 4909
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1GCY 1.87 24.25 29394 27922 1470 100 0.19369 0.19369 0.19119 0.2035 0.2402 0.2501 RANDOM 20.144
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] -0.2 0.47 -0.04 0.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.326 r_scangle_it 3.523 r_scbond_it 2.062 r_mcangle_it 1.341 r_angle_refined_deg 1.318 r_angle_other_deg 0.829 r_mcbond_it 0.709 r_symmetry_vdw_other 0.288 r_symmetry_hbond_refined 0.264 r_symmetry_vdw_refined 0.253
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.326 r_scangle_it 3.523 r_scbond_it 2.062 r_mcangle_it 1.341 r_angle_refined_deg 1.318 r_angle_other_deg 0.829 r_mcbond_it 0.709 r_symmetry_vdw_other 0.288 r_symmetry_hbond_refined 0.264 r_symmetry_vdw_refined 0.253 r_nbd_other 0.247 r_nbd_refined 0.214 r_xyhbond_nbd_refined 0.199 r_nbtor_other 0.085 r_chiral_restr 0.084 r_metal_ion_refined 0.023 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3044 Nucleic Acid Atoms Solvent Atoms 273 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement MAR345 data collection XDS data scaling CNS phasing