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Structure of wild-type ISL2-LID in complex with LHX4-LIM1+2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3MMK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 110 mM BisTris propane and 3 M ammonium acetate
Crystal Properties Matthews coefficient Solvent content 2.47 53.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.488 α = 90 b = 88.843 β = 111.33 c = 50.303 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 IMAGE PLATE MAR scanner 345 mm plate 2014-11-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.92 27.55 99.8 0.125 0.14 0.063 1 10.2 4.6 29762 23.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.92 1.95 97.6 0.77 0.915 0.481 0.393 1.3 3.2
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 3mmk 1.92 25 28066 1495 99.42 0.20313 0.20095 0.2129 0.24343 0.2509 RANDOM 30.694
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] -0.22 -0.69 -1.53 1.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.878 r_dihedral_angle_4_deg 17.719 r_dihedral_angle_3_deg 13.703 r_dihedral_angle_1_deg 7.14 r_long_range_B_refined 5.848 r_long_range_B_other 5.781 r_scangle_other 3.848 r_mcangle_it 3.04 r_mcangle_other 3.04 r_scbond_it 2.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.878 r_dihedral_angle_4_deg 17.719 r_dihedral_angle_3_deg 13.703 r_dihedral_angle_1_deg 7.14 r_long_range_B_refined 5.848 r_long_range_B_other 5.781 r_scangle_other 3.848 r_mcangle_it 3.04 r_mcangle_other 3.04 r_scbond_it 2.33 r_scbond_other 2.329 r_mcbond_it 1.852 r_mcbond_other 1.849 r_angle_refined_deg 1.116 r_angle_other_deg 0.825 r_chiral_restr 0.055 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2432 Nucleic Acid Atoms Solvent Atoms 210 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction Aimless data scaling MOLREP phasing