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Structural analysis of the yeast actin binding protein Abp1 SH3 domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CKA PDB entry 1CKA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 298 Ammonium sulfate, bis-tris-propane, pH 8.0, VAPOR DIFFUSION, SITTING DROP at 298K
Crystal Properties Matthews coefficient Solvent content 2.04 39.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 24.08 α = 90 b = 38.155 β = 90 c = 59.09 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 2000-09-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 0.842 EMBL/DESY, HAMBURG BW7B
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 1.3 25 98 0.056 20.3 4.1 57575 56424 9.8
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) 1.3 1.32 88.6 0.266 4 617
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1CKA 1.3 17.51 13027 13027 680 98.05 0.1451 0.14512 0.14352 0.1454 0.17785 0.1809 RANDOM 8.742
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 -0.04 0.02
RMS Deviations Key Refinement Restraint Deviation p_multtor_nbd 13.761 p_singtor_nbd 4.972 p_scangle_it 3.274 p_scbond_it 2.214 p_mcangle_it 1.833 p_angle_deg 1.714 p_angle_d 1.714 p_mcbond_it 1.137 p_chiral_restr 0.118 p_bond_d 0.011
RMS Deviations Key Refinement Restraint Deviation p_multtor_nbd 13.761 p_singtor_nbd 4.972 p_scangle_it 3.274 p_scbond_it 2.214 p_mcangle_it 1.833 p_angle_deg 1.714 p_angle_d 1.714 p_mcbond_it 1.137 p_chiral_restr 0.118 p_bond_d 0.011 p_planar_d 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 505 Nucleic Acid Atoms Solvent Atoms 131 Heterogen Atoms 13
Software Software Software Name Purpose AMoRE phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling