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Crystal structure of human RAB26 in complex with a GTP analogue
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1G16 pdb entry 1G16_A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 291 25% PEG3350, 0.1M NH4SO4, 0.1M HEPES, pH 7.5, vapor diffusion, sitting drop, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.4 49.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.368 α = 90 b = 55.614 β = 90 c = 92.3 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 IMAGE PLATE RIGAKU RAXIS 2006-02-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 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 30 99.5 0.173 4.4 7.6 12581
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 95.7 0.841 6.3
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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT pdb entry 1G16_A 2 30 12491 609 99.673 0.213 0.2096 0.2152 0.2769 0.2877 19.721
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] 0.059 0.615 -0.674
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.279 r_dihedral_angle_4_deg 17.854 r_dihedral_angle_3_deg 13.782 r_dihedral_angle_1_deg 5.4 r_scangle_it 3.249 r_mcangle_it 3.22 r_mcbond_it 2.367 r_scbond_it 2.342 r_angle_refined_deg 1.461 r_angle_other_deg 1.018
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.279 r_dihedral_angle_4_deg 17.854 r_dihedral_angle_3_deg 13.782 r_dihedral_angle_1_deg 5.4 r_scangle_it 3.249 r_mcangle_it 3.22 r_mcbond_it 2.367 r_scbond_it 2.342 r_angle_refined_deg 1.461 r_angle_other_deg 1.018 r_mcbond_other 0.558 r_symmetry_hbond_refined 0.311 r_symmetry_vdw_other 0.31 r_nbd_other 0.209 r_symmetry_vdw_refined 0.202 r_nbd_refined 0.2 r_nbtor_refined 0.177 r_xyhbond_nbd_refined 0.167 r_nbtor_other 0.087 r_chiral_restr 0.08 r_metal_ion_refined 0.027 r_bond_refined_d 0.018 r_gen_planes_refined 0.006 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1272 Nucleic Acid Atoms Solvent Atoms 62 Heterogen Atoms 37
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction