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Structure of Anopheles gambiae OBP9 in complex with PEG
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6OG0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 0.12 M Ethylene glycols:
0.3M Diethylene glycol; 0.3M Triethylene
glycol; 0.3M Tetraethylene glycol; 0.3M
Pentaethylene glycol
0.1 M Imidazole; MES monohydrate (acid)
pH 6.5
30% v/v Mix 1:
40% v/v PEG 500* MME; 20% w/v PEG 20000
Crystal Properties Matthews coefficient Solvent content 1.71 27.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.041 α = 90 b = 44.173 β = 90 c = 62.087 γ = 90
Symmetry Space Group P 21 21 21
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 EIGER X 16M 2022-09-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.88559 PETRA III, EMBL c/o DESY P13 (MX1)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.2 62.09 100 0.993 17.2 12.9 30888
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.2 1.22 100 0.982
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.2 31.06 29327 1501 99.94 0.18521 0.18389 0.1819 0.2088 0.2177 RANDOM 20.462
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] 1.21 -0.19 -1.02
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 16.157 r_long_range_B_other 16.101 r_dihedral_angle_3_deg 13.88 r_scangle_other 10.44 r_mcangle_it 9.715 r_mcangle_other 9.712 r_mcbond_it 7.766 r_mcbond_other 7.752 r_scbond_it 7.282 r_scbond_other 7.276
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 16.157 r_long_range_B_other 16.101 r_dihedral_angle_3_deg 13.88 r_scangle_other 10.44 r_mcangle_it 9.715 r_mcangle_other 9.712 r_mcbond_it 7.766 r_mcbond_other 7.752 r_scbond_it 7.282 r_scbond_other 7.276 r_dihedral_angle_2_deg 6.434 r_dihedral_angle_1_deg 4.992 r_rigid_bond_restr 4.163 r_angle_refined_deg 1.937 r_angle_other_deg 0.725 r_chiral_restr 0.108 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 945 Nucleic Acid Atoms Solvent Atoms 91 Heterogen Atoms 19
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing