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Structure Of Human ADP-Ribosylation Factor-Like 5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RRF PDB entry 1RRF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 291 PEG 4000, ammonium sulfate, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.4 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.657 α = 112.96 b = 48.775 β = 97.69 c = 55.905 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV CONFOCAL MAXFLUX 2005-03-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E 1.5418
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 2.4 50.9 0.048 10.9 1.9 13917 13917 1 1
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) 2.4 2.49 95 0.087 5 1.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1RRF 2.4 50.9 13917 13214 702 95.73 0.2355 0.23307 0.2317 0.28277 0.2797 RANDOM 25.023
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] -1.01 0.31 0.07 -1.49 1.83 3.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.843 r_dihedral_angle_4_deg 18.245 r_dihedral_angle_3_deg 16.588 r_dihedral_angle_1_deg 4.777 r_scangle_it 3.971 r_scbond_it 2.496 r_mcangle_it 1.749 r_angle_refined_deg 1.704 r_mcbond_it 0.943 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.843 r_dihedral_angle_4_deg 18.245 r_dihedral_angle_3_deg 16.588 r_dihedral_angle_1_deg 4.777 r_scangle_it 3.971 r_scbond_it 2.496 r_mcangle_it 1.749 r_angle_refined_deg 1.704 r_mcbond_it 0.943 r_nbtor_refined 0.308 r_symmetry_vdw_refined 0.259 r_nbd_refined 0.247 r_symmetry_hbond_refined 0.164 r_xyhbond_nbd_refined 0.158 r_chiral_restr 0.106 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2740 Nucleic Acid Atoms Solvent Atoms 135 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction CrystalClear data scaling AMoRE phasing