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Crystal structure of human CRFR2 alpha extracellular domain in complex with Urocortin 2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3N93 PDB ENTRY 3N93
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 12% PEG 6000
0.1M ADA (pH 6.0)
0.1M MgCl2
12% Glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.77 55.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.311 α = 90 b = 212.068 β = 104.54 c = 107.319 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 MARMOSAIC 300 mm CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 0.97872 APS 21-ID-D
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 2.72 50 98.93 0.15 14.28 62181 -3
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) 2.72 2.82 0.7 2.82
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 PDB ENTRY 3N93 2.72 50 62071 3148 98.93 0.226 0.224 0.223 0.266 0.2645 RANDOM 24.744
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] 1.08 -0.07 1.49 -2.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.617 r_dihedral_angle_3_deg 16.93 r_dihedral_angle_4_deg 13.038 r_dihedral_angle_1_deg 5.272 r_angle_refined_deg 1.229 r_scangle_it 1.004 r_scbond_it 0.64 r_mcangle_it 0.384 r_mcbond_it 0.217 r_chiral_restr 0.084
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.617 r_dihedral_angle_3_deg 16.93 r_dihedral_angle_4_deg 13.038 r_dihedral_angle_1_deg 5.272 r_angle_refined_deg 1.229 r_scangle_it 1.004 r_scbond_it 0.64 r_mcangle_it 0.384 r_mcbond_it 0.217 r_chiral_restr 0.084 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14722 Nucleic Acid Atoms Solvent Atoms 272 Heterogen Atoms 92
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection HKL-2000 data reduction HKL-2000 data scaling PHASES phasing