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Crystal structure of the human REM2 GTPase with bound GDP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GJS PDB entry 2GJS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 291 20% PEG 3350, 0.2M KCl, VAPOR DIFFUSION, temperature 291K
Crystal Properties Matthews coefficient Solvent content 1.72 28.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.143 α = 90 b = 64.33 β = 90 c = 73.204 γ = 90
Symmetry Space Group C 2 2 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 2008-02-07 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 1.82 25 99.8 0.074 10.6 6.9 13866
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) 1.82 1.89 99 0.658 6.5 1364
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 2GJS 1.82 22.71 13840 679 99.81 0.192 0.19 0.1938 0.249 0.2443 RANDOM 20.115
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] -1.33 1.97 -0.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.629 r_dihedral_angle_4_deg 19.485 r_dihedral_angle_3_deg 11.281 r_dihedral_angle_1_deg 5.693 r_scangle_it 3.574 r_mcangle_it 3.214 r_mcbond_it 2.656 r_scbond_it 2.623 r_angle_refined_deg 1.437 r_angle_other_deg 0.922
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.629 r_dihedral_angle_4_deg 19.485 r_dihedral_angle_3_deg 11.281 r_dihedral_angle_1_deg 5.693 r_scangle_it 3.574 r_mcangle_it 3.214 r_mcbond_it 2.656 r_scbond_it 2.623 r_angle_refined_deg 1.437 r_angle_other_deg 0.922 r_mcbond_other 0.76 r_symmetry_vdw_other 0.266 r_nbd_other 0.203 r_nbd_refined 0.194 r_nbtor_refined 0.167 r_symmetry_hbond_refined 0.154 r_xyhbond_nbd_refined 0.128 r_xyhbond_nbd_other 0.107 r_chiral_restr 0.084 r_nbtor_other 0.083 r_symmetry_vdw_refined 0.072 r_metal_ion_refined 0.052 r_bond_refined_d 0.016 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1309 Nucleic Acid Atoms Solvent Atoms 70 Heterogen Atoms 38
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling