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HCN4 CNBD in complex with cGMP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3U11 PDB ENTRY 3U11
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 298 10-15% PEG3350, 200 mM sodium acetate buffer, 200 mM ammonium phosphate, 5-50mM cGMP, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.82 56.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.1 α = 90 b = 99.03 β = 90 c = 109.57 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 PILATUS 6M 2010-01-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.97240 ESRF ID29
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 2.7 58.62 100 0.1 18.1 7.1 29735 29735 2 2
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 2.7 2.85 100 0.45 4.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 3U11 2.7 58.62 2 29735 28176 1505 99.99 0.21403 0.21002 0.2059 0.27226 0.2734 RANDOM 37.694
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] 1.52 -0.56 -0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.538 r_dihedral_angle_4_deg 22.463 r_dihedral_angle_3_deg 22.063 r_dihedral_angle_1_deg 13.921 r_scangle_it 4.12 r_scbond_it 2.485 r_angle_refined_deg 1.862 r_mcangle_it 1.833 r_mcbond_it 0.957 r_chiral_restr 0.119
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.538 r_dihedral_angle_4_deg 22.463 r_dihedral_angle_3_deg 22.063 r_dihedral_angle_1_deg 13.921 r_scangle_it 4.12 r_scbond_it 2.485 r_angle_refined_deg 1.862 r_mcangle_it 1.833 r_mcbond_it 0.957 r_chiral_restr 0.119 r_bond_refined_d 0.018 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6408 Nucleic Acid Atoms Solvent Atoms 118 Heterogen Atoms 212
Software Software Software Name Purpose MxCuBE data collection PHASES phasing REFMAC refinement MOSFLM data reduction SCALA data scaling