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Crystal structure of the RP105/MD-1 complex
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 296 19% PEG8000, 100 mM Tris, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 2.98 58.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.509 α = 94 b = 141.577 β = 91.66 c = 141.953 γ = 91.37
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 MARMOSAIC 300 mm CCD 2008-10-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B APS 23-ID-B
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 2.91 20 93.5 0.063 18.2 2.1 160125 160125
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 2.91 3 73 0.457 1.8 1.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.91 20 152067 152067 8030 92.5 0.24025 0.2384 0.2405 0.27551 0.2758 RANDOM 61.234
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] 7 0.98 -0.19 -2.28 -1.92 -4.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.014 r_dihedral_angle_4_deg 19.57 r_dihedral_angle_3_deg 16.708 r_dihedral_angle_1_deg 6.118 r_angle_other_deg 4.496 r_scangle_it 1.921 r_angle_refined_deg 1.428 r_scbond_it 1.159 r_mcangle_it 0.588 r_mcbond_it 0.287
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.014 r_dihedral_angle_4_deg 19.57 r_dihedral_angle_3_deg 16.708 r_dihedral_angle_1_deg 6.118 r_angle_other_deg 4.496 r_scangle_it 1.921 r_angle_refined_deg 1.428 r_scbond_it 1.159 r_mcangle_it 0.588 r_mcbond_it 0.287 r_chiral_restr 0.072 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_gen_planes_other 0.004 r_bond_other_d 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 42570 Nucleic Acid Atoms Solvent Atoms 37 Heterogen Atoms 1188
Software Software Software Name Purpose HKL-2000 data collection PHASES phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling