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Triglycine variant of the ARNO Pleckstrin Homology Domain in complex with Ins(1,4,5)P3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FGY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 PEG 4000, Hepes, 10% glycerol, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.31 46.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.998 α = 90 b = 56.378 β = 90 c = 57.091 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 IMAGE PLATE MARRESEARCH 2001-03-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.8 20 99.6 13456 13437 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.8 1.85 99.4
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-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1FGY 1.8 20 12727 12727 660 99.83 0.2304 0.23038 0.22877 0.26225 0.303 RANDOM 25.493
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] 0.93 -1.68 0.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.02 r_scangle_it 2.919 r_scbond_it 1.902 r_mcangle_it 1.4 r_angle_refined_deg 1.203 r_angle_other_deg 0.748 r_mcbond_it 0.747 r_symmetry_vdw_other 0.305 r_nbd_other 0.241 r_nbd_refined 0.177
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.02 r_scangle_it 2.919 r_scbond_it 1.902 r_mcangle_it 1.4 r_angle_refined_deg 1.203 r_angle_other_deg 0.748 r_mcbond_it 0.747 r_symmetry_vdw_other 0.305 r_nbd_other 0.241 r_nbd_refined 0.177 r_symmetry_hbond_refined 0.137 r_xyhbond_nbd_refined 0.134 r_symmetry_vdw_refined 0.103 r_nbtor_other 0.08 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 977 Nucleic Acid Atoms Solvent Atoms 89 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing