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Structure of human ADP-ribosylation factor-like 10B (ARL10B)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2AL7 pdb entry 2AL7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 291 20% PEG3350, 0.2M potassium chloride, 5mM TRIS, pH 7.5, vapor diffusion, sitting drop, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.09 41.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.406 α = 90 b = 66.46 β = 117.54 c = 39.646 γ = 90
Symmetry Space Group P 1 21 1
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 2005-12-14 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 1.9 30 95.4 0.047 14.1 3.7 13666
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 1.9 1.97 92.6 0.274 3.7
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 2AL7 1.902 30 13645 693 95.426 0.203 0.2013 0.2463 0.2414 0.2923 random 16.145
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] -0.454 -0.285 -0.511 0.701
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.297 r_dihedral_angle_4_deg 18.289 r_dihedral_angle_3_deg 12.686 r_dihedral_angle_1_deg 4.609 r_scangle_it 3.07 r_mcangle_it 2.792 r_scbond_it 2.27 r_mcbond_it 2.024 r_angle_refined_deg 1.375 r_nbtor_refined 0.295
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.297 r_dihedral_angle_4_deg 18.289 r_dihedral_angle_3_deg 12.686 r_dihedral_angle_1_deg 4.609 r_scangle_it 3.07 r_mcangle_it 2.792 r_scbond_it 2.27 r_mcbond_it 2.024 r_angle_refined_deg 1.375 r_nbtor_refined 0.295 r_symmetry_vdw_refined 0.225 r_nbd_refined 0.196 r_xyhbond_nbd_refined 0.131 r_chiral_restr 0.09 r_symmetry_hbond_refined 0.088 r_bond_refined_d 0.016 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1372 Nucleic Acid Atoms Solvent Atoms 57 Heterogen Atoms 33
Software Software Software Name Purpose PHASER phasing DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction