☰ Navigation Tabs
X-ray crystal structure of PfA-M1 bound to Bestatin derivative 16
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3EBG PDB ENTRY 3EBG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 22% (vol/vol) polyethylene glycol 8000, 10% (vol/vol) glycerol, 0.1 M Tris (pH 8.5), 0.2 M MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.34 47.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.61 α = 90 b = 108.591 β = 90 c = 118.347 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 CCD ADSC QUANTUM 315r 2009-09-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 1.0 Australian Synchrotron MX2
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 75.61 100 90904
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 1.9 99.9
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 3EBG 1.8 63.72 86269 4554 99.99 0.18747 0.18536 0.1785 0.22665 0.2219 RANDOM 20.204
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] -0.64 -0.45 1.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.513 r_dihedral_angle_4_deg 19.565 r_dihedral_angle_3_deg 13.528 r_dihedral_angle_1_deg 7.347 r_scangle_it 4.447 r_scbond_it 2.814 r_mcangle_it 1.621 r_angle_refined_deg 1.594 r_mcbond_it 0.924 r_chiral_restr 0.112
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.513 r_dihedral_angle_4_deg 19.565 r_dihedral_angle_3_deg 13.528 r_dihedral_angle_1_deg 7.347 r_scangle_it 4.447 r_scbond_it 2.814 r_mcangle_it 1.621 r_angle_refined_deg 1.594 r_mcbond_it 0.924 r_chiral_restr 0.112 r_bond_refined_d 0.018 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7218 Nucleic Acid Atoms Solvent Atoms 1020 Heterogen Atoms 44
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling