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Crystal structure of aphrodisin, a sex pheromone from female hamster
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A3Y
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 3.8 PEG 8K 28%, 150MM AS, 10MM NACL PH 3.8, [P]=2.65MG/NL
Crystal Properties Matthews coefficient Solvent content 2.52 51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.05 α = 90 b = 48.92 β = 102.63 c = 123.547 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 ADSC CCD BENT MIRROR 1999-09-15 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.978, 0.9795, 0.9324, 0.933 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.6 30 97.1 0.099 7.9 2.4 89441 23.77
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.64 94 0.31 2.1 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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1A3Y 1.63 15 88875 2202 96 0.194 0.194 0.234 RANDOM
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]
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 25.3 p_staggered_tor 15.4 p_special_tor 15 p_scangle_it 3.96 p_planar_tor 3.9 p_scbond_it 2.853 p_mcangle_it 2.535 p_mcbond_it 1.829 p_multtor_nbd 0.252 p_singtor_nbd 0.187
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 25.3 p_staggered_tor 15.4 p_special_tor 15 p_scangle_it 3.96 p_planar_tor 3.9 p_scbond_it 2.853 p_mcangle_it 2.535 p_mcbond_it 1.829 p_multtor_nbd 0.252 p_singtor_nbd 0.187 p_xyhbond_nbd 0.122 p_planar_d 0.036 p_angle_d 0.029 p_bond_d 0.012 p_angle_deg p_hb_or_metal_coord p_plane_restr p_chiral_restr p_xhyhbond_nbd p_orthonormal_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4753 Nucleic Acid Atoms Solvent Atoms 703 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALA data scaling SOLVE phasing