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Crystal structure of the RabGAP domain of the RABGAP1L protein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 291 16% PEG3350, 0.2M potassium chloride, 1:100 (w/w) Dispase., pH 6.0, vapor diffusion, hanging drop, temperature 291K 2 5.8 291 15% PEG3350, 0.2M potassium chloride, 1:100 (w/w) Dispase., pH 5.8, vapor diffusion, hanging drop, temperature 291K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.086 α = 90 b = 64.571 β = 90 c = 290.255 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 MARCCD 300 2009-05-18 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MARCCD 300 2009-05-17 2009-05-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.92015 CLSI 08ID-1 2 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97959 CLSI 08ID-1
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 2.3 30 88.4 0.053 31.893 3.5 38070
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) 2.3 2.38 49.8 0.233 2
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD 2.3 20 38070 1191 92.3 0.245 0.244 0.274 0.2649 THIN SHELLS (SFTOOLS) 43.62
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] 0.337 1.886 -2.224
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.129 r_dihedral_angle_4_deg 16.103 r_dihedral_angle_3_deg 14.336 r_dihedral_angle_1_deg 4.937 r_scangle_it 2.255 r_scbond_it 1.754 r_angle_refined_deg 1.117 r_angle_other_deg 0.875 r_mcangle_it 0.706 r_mcbond_it 0.361
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.129 r_dihedral_angle_4_deg 16.103 r_dihedral_angle_3_deg 14.336 r_dihedral_angle_1_deg 4.937 r_scangle_it 2.255 r_scbond_it 1.754 r_angle_refined_deg 1.117 r_angle_other_deg 0.875 r_mcangle_it 0.706 r_mcbond_it 0.361 r_mcbond_other 0.101 r_chiral_restr 0.062 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6428 Nucleic Acid Atoms Solvent Atoms 13 Heterogen Atoms 32
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHELX phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling