☰ Navigation Tabs
X-ray crystal structure of PfA-M1 bound to bestatin derivative 15
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), 0.2M MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.36 47.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.772 α = 90 b = 108.814 β = 90 c = 118.683 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 55.05 99.8 91348
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 35.07 86687 4578 99.81 0.16817 0.16612 0.1656 0.20694 0.2064 RANDOM 16.407
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] 0.05 -0.75 0.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.369 r_dihedral_angle_4_deg 18.117 r_dihedral_angle_3_deg 13.321 r_dihedral_angle_1_deg 6.811 r_scangle_it 4.409 r_scbond_it 2.752 r_mcangle_it 1.557 r_angle_refined_deg 1.531 r_mcbond_it 0.88 r_chiral_restr 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.369 r_dihedral_angle_4_deg 18.117 r_dihedral_angle_3_deg 13.321 r_dihedral_angle_1_deg 6.811 r_scangle_it 4.409 r_scbond_it 2.752 r_mcangle_it 1.557 r_angle_refined_deg 1.531 r_mcbond_it 0.88 r_chiral_restr 0.11 r_bond_refined_d 0.017 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7195 Nucleic Acid Atoms Solvent Atoms 930 Heterogen Atoms 53
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling