☰ Navigation Tabs
Monomeric red fluorescent protein, DsRed.M1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZGO PDB ENTRY 1ZGO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.6 100 MM HEPES, PH 7.6, 25% PEG3350, 200 MM MGCL2, 5 MM ZNSO4, RT, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2 37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.892 α = 90 b = 62.151 β = 90 c = 81.882 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 CCD 2007-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C APS 14-BM-C
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 1.59 50 99.7 0.06 43.7 6.6 27397
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 1.59 1.65 99.6 0.4 6.7
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 PDB ENTRY 1ZGO 1.59 22.34 25940 1386 99.8 0.177 0.176 0.1859 0.197 0.2082 RANDOM 15.75
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] 0.02 -0.04 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.874 r_dihedral_angle_4_deg 14.579 r_dihedral_angle_3_deg 11.702 r_dihedral_angle_1_deg 6.578 r_scangle_it 4.087 r_angle_other_deg 3.729 r_scbond_it 2.807 r_angle_refined_deg 1.693 r_mcangle_it 1.54 r_mcbond_it 0.898
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.874 r_dihedral_angle_4_deg 14.579 r_dihedral_angle_3_deg 11.702 r_dihedral_angle_1_deg 6.578 r_scangle_it 4.087 r_angle_other_deg 3.729 r_scbond_it 2.807 r_angle_refined_deg 1.693 r_mcangle_it 1.54 r_mcbond_it 0.898 r_symmetry_vdw_other 0.306 r_symmetry_vdw_refined 0.246 r_symmetry_hbond_refined 0.238 r_nbd_other 0.23 r_nbd_refined 0.2 r_nbtor_refined 0.186 r_nbtor_other 0.175 r_xyhbond_nbd_refined 0.136 r_chiral_restr 0.1 r_gen_planes_other 0.02 r_bond_refined_d 0.014 r_gen_planes_refined 0.012 r_bond_other_d r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1755 Nucleic Acid Atoms Solvent Atoms 139 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PHASER phasing