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Structure of PAE2307 in complex with adenosine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WVQ PDB entry 1WVQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.3 291 21% (w/v) MPEG 5000,
0.2M AMPSO/KOH, pH 8.3, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.12 41.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.862 α = 90 b = 109.825 β = 90 c = 112.484 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 110 CCD ADSC QUANTUM 210 silicon monochromator 2005-09-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.97934 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.25 112.509 98.4 0.071 0.071 7.8 4 45062
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.25 2.37 94.6 94.6 0.238 0.238 3 3.1 6169
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1WVQ 2.25 49.33 45951 45058 2273 98.06 0.174 0.17 0.1696 0.245 0.2431 RANDOM 18.323
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] -0.35 0.37 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.754 r_dihedral_angle_3_deg 18.896 r_dihedral_angle_4_deg 18.246 r_dihedral_angle_1_deg 8.215 r_scangle_it 4.115 r_scbond_it 2.816 r_angle_refined_deg 2.297 r_mcangle_it 1.601 r_mcbond_it 1.041 r_symmetry_vdw_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.754 r_dihedral_angle_3_deg 18.896 r_dihedral_angle_4_deg 18.246 r_dihedral_angle_1_deg 8.215 r_scangle_it 4.115 r_scbond_it 2.816 r_angle_refined_deg 2.297 r_mcangle_it 1.601 r_mcbond_it 1.041 r_symmetry_vdw_refined 0.313 r_nbtor_refined 0.312 r_nbd_refined 0.234 r_xyhbond_nbd_refined 0.215 r_symmetry_hbond_refined 0.196 r_chiral_restr 0.151 r_bond_refined_d 0.027 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7686 Nucleic Acid Atoms Solvent Atoms 407 Heterogen Atoms 124
Software Software Software Name Purpose SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection CCP4 data scaling