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An ancestral arginine-binding protein bound to glutamine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ZV1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 277 0.2 M MgCl2, 0.1 M HEPES pH 7.5, 24% (w/v) PEG 3350, microseeds from crushed crystals produced using same precipitant
Crystal Properties Matthews coefficient Solvent content 2.26 45.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.2 α = 90 b = 61.3 β = 90 c = 104.57 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 2014-02-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.9655 Australian Synchrotron MX2
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 1.43 36.2 99.7 0.178 9.2 12.7 43838
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 1.43 1.45 96.7 1.871 1.5 9.7
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 4ZV1 1.43 34.21 41372 2193 99.21 0.18293 0.18175 0.1912 0.20487 0.2108 RANDOM 15.311
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.957 r_dihedral_angle_4_deg 18.745 r_dihedral_angle_3_deg 12.651 r_dihedral_angle_1_deg 6.293 r_long_range_B_refined 5.463 r_long_range_B_other 5.402 r_scangle_other 4.033 r_scbond_it 2.674 r_scbond_other 2.674 r_mcangle_it 2.453
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.957 r_dihedral_angle_4_deg 18.745 r_dihedral_angle_3_deg 12.651 r_dihedral_angle_1_deg 6.293 r_long_range_B_refined 5.463 r_long_range_B_other 5.402 r_scangle_other 4.033 r_scbond_it 2.674 r_scbond_other 2.674 r_mcangle_it 2.453 r_mcangle_other 2.452 r_angle_refined_deg 2.299 r_mcbond_other 1.647 r_mcbond_it 1.646 r_angle_other_deg 1 r_chiral_restr 0.159 r_bond_refined_d 0.025 r_gen_planes_refined 0.014 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1720 Nucleic Acid Atoms Solvent Atoms 266 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement Aimless data scaling MOSFLM data reduction MOLREP phasing