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Complement factor B in complex with (-)-4-(1-((5,7-Dimethyl-1H-indol-4-yl)methyl)piperidin-2-yl)benzoic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DLE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 25% PEG3350, 0.1M BIS-TRIS PH 6.5, 0.2M
AMMONIUM SULFATE, 0.1 MM ZNCL2, 1 mM inhibitor
Crystal Properties Matthews coefficient Solvent content 2.47 50.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.696 α = 90 b = 97.656 β = 100.309 c = 61.881 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 PIXEL DECTRIS PILATUS 2M 2011-06-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.000 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.7 60.87 99.3 0.051 0.061 13.55 3.4 69872 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.75 0.259 0.356 3.86
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1DLE 1.7 53.813 69712 3486 99.289 0.199 0.1975 0.1972 0.2383 0.2381 28.47
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] 0.015 -0.133 0.022 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.445 r_dihedral_angle_3_deg 16.383 r_dihedral_angle_4_deg 15.025 r_lrange_it 7.104 r_dihedral_angle_1_deg 6.513 r_scangle_it 5.567 r_scbond_it 3.812 r_mcangle_it 3.706 r_mcbond_it 2.598 r_angle_refined_deg 1.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.445 r_dihedral_angle_3_deg 16.383 r_dihedral_angle_4_deg 15.025 r_lrange_it 7.104 r_dihedral_angle_1_deg 6.513 r_scangle_it 5.567 r_scbond_it 3.812 r_mcangle_it 3.706 r_mcbond_it 2.598 r_angle_refined_deg 1.67 r_nbtor_refined 0.316 r_nbd_refined 0.214 r_symmetry_nbd_refined 0.212 r_symmetry_xyhbond_nbd_refined 0.138 r_chiral_restr 0.123 r_xyhbond_nbd_refined 0.12 r_symmetry_metal_ion_refined 0.108 r_ncsr_local_group_1 0.1 r_metal_ion_refined 0.061 r_bond_refined_d 0.009 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4447 Nucleic Acid Atoms Solvent Atoms 343 Heterogen Atoms 75
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing