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pVHL54-213-EloB-EloC complex _ methyl 4-(((2S,4R)-4-hydroxy-1-(2-(3- methylisoxazol-5-yl)acetyl)pyrrolidine-2-carboxamido)methyl)benzoate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ZRF PDB ENTRY 3ZRF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 0.1 M NA CITRATE PH 5.7, 0.2 M MG ACETATE, 15% PEG8000, 50 MM DTT.
Crystal Properties Matthews coefficient Solvent content 2.78 55.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.081 α = 90 b = 94.081 β = 90 c = 366.494 γ = 90
Symmetry Space Group P 41 2 2
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 225 mm CCD 2010-07-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 2.79 50 99.8 0.14 16.78 14.2 42297 3 56
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 2.79 2.96 99.2 0.58 4.71 14.6
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 3ZRF 2.79 47.04 40180 2115 100 0.22866 0.22443 0.2201 0.30898 0.3032 RANDOM 38.947
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] -0.01 -0.01 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.812 r_dihedral_angle_4_deg 21.381 r_dihedral_angle_3_deg 21.099 r_dihedral_angle_1_deg 8.534 r_scangle_it 4.212 r_scbond_it 2.531 r_angle_refined_deg 2.203 r_mcangle_it 1.734 r_mcbond_it 0.9 r_chiral_restr 0.131
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.812 r_dihedral_angle_4_deg 21.381 r_dihedral_angle_3_deg 21.099 r_dihedral_angle_1_deg 8.534 r_scangle_it 4.212 r_scbond_it 2.531 r_angle_refined_deg 2.203 r_mcangle_it 1.734 r_mcbond_it 0.9 r_chiral_restr 0.131 r_bond_refined_d 0.021 r_gen_planes_refined 0.01 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10279 Nucleic Acid Atoms Solvent Atoms 13 Heterogen Atoms 116
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing