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Structure of human ADP-ribosylation factor-like 5 (ARL5)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZJ6 pdb entry 1zj6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 291 20% PEG3350, 0.2M diammomium citrate, 5mM Tris, pH 7.5, vapor diffusion, sitting drop, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.88 57.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.624 α = 90 b = 94.624 β = 90 c = 214.836 γ = 90
Symmetry Space Group P 43 21 2
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 210 2005-12-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.0000 APS 17-ID
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 50 93.7 0.053 15.7 11.1 62818
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 2.07 51.9 0.266 4.6
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT pdb entry 1zj6 2 30 62682 1920 93.939 0.205 0.2041 0.2029 0.2339 0.2281 Thin shells 27.459
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] 0.728 0.728 -1.456
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.521 r_dihedral_angle_4_deg 17.958 r_dihedral_angle_3_deg 11.856 r_dihedral_angle_1_deg 5.03 r_scangle_it 4.161 r_mcangle_it 3.888 r_scbond_it 2.977 r_mcbond_it 2.812 r_angle_refined_deg 1.384 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.521 r_dihedral_angle_4_deg 17.958 r_dihedral_angle_3_deg 11.856 r_dihedral_angle_1_deg 5.03 r_scangle_it 4.161 r_mcangle_it 3.888 r_scbond_it 2.977 r_mcbond_it 2.812 r_angle_refined_deg 1.384 r_nbtor_refined 0.3 r_nbd_refined 0.193 r_symmetry_vdw_refined 0.184 r_symmetry_hbond_refined 0.167 r_xyhbond_nbd_refined 0.125 r_chiral_restr 0.092 r_bond_refined_d 0.015 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4836 Nucleic Acid Atoms Solvent Atoms 270 Heterogen Atoms 140
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ARP/wARP model building MolProbity model building