☰ Navigation Tabs
AAGlyB in complex with amino-acid analogues
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4KC1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 PEG3350
ammonium sulfate
MOPS
MnCl2
Crystal Properties Matthews coefficient Solvent content 1.93 36.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.84 α = 90 b = 149.15 β = 90 c = 80.09 γ = 90
Symmetry Space Group C 2 2 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-F 2013-07-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.954 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 1.3 42.3 99.6 0.11 14.69 13.2 77776
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 1.3 1.5 99.5 0.82 2.99 13 26858
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 4KC1 1.3 42.3 76190 1556 99.64 0.15984 0.15937 0.1598 0.18333 0.1838 RANDOM 13.826
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] -0.59 0.81 -0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.148 r_sphericity_free 22.926 r_dihedral_angle_4_deg 15.493 r_dihedral_angle_3_deg 10.58 r_dihedral_angle_1_deg 6.218 r_sphericity_bonded 5.793 r_long_range_B_refined 2.192 r_long_range_B_other 1.596 r_rigid_bond_restr 1.412 r_angle_other_deg 1.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.148 r_sphericity_free 22.926 r_dihedral_angle_4_deg 15.493 r_dihedral_angle_3_deg 10.58 r_dihedral_angle_1_deg 6.218 r_sphericity_bonded 5.793 r_long_range_B_refined 2.192 r_long_range_B_other 1.596 r_rigid_bond_restr 1.412 r_angle_other_deg 1.322 r_angle_refined_deg 1.298 r_scangle_other 1.134 r_scbond_it 1.079 r_scbond_other 1.079 r_mcangle_it 0.817 r_mcangle_other 0.817 r_mcbond_it 0.625 r_mcbond_other 0.62 r_chiral_restr 0.078 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2315 Nucleic Acid Atoms Solvent Atoms 377 Heterogen Atoms 55
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing