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Crystal Structure of Human SAR1a in Complex With GDP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F6B PDB Entry: 1F6B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 30% PEG8000, 0.2M ammonium sulfate, vapor diffusion, sitting drop, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.35 47.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.295 α = 90 b = 63.814 β = 105.94 c = 62.132 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 2006-03-07 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 99.9 0.199 5 4.3 29052
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 2.07 99.2 4
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB Entry: 1F6B 2 30 29010 1470 99.227 0.226 0.2238 0.2694 0.2252 thin shells 18.669
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] 0.914 0.138 -1.376 0.538
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.112 r_dihedral_angle_4_deg 18.716 r_dihedral_angle_3_deg 12.564 r_dihedral_angle_1_deg 4.935 r_mcangle_it 3.217 r_scangle_it 3.019 r_mcbond_it 2.71 r_scbond_it 2.218 r_angle_refined_deg 1.422 r_angle_other_deg 0.953
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.112 r_dihedral_angle_4_deg 18.716 r_dihedral_angle_3_deg 12.564 r_dihedral_angle_1_deg 4.935 r_mcangle_it 3.217 r_scangle_it 3.019 r_mcbond_it 2.71 r_scbond_it 2.218 r_angle_refined_deg 1.422 r_angle_other_deg 0.953 r_mcbond_other 0.605 r_symmetry_vdw_refined 0.261 r_symmetry_vdw_other 0.205 r_nbd_refined 0.2 r_nbd_other 0.187 r_nbtor_refined 0.173 r_xyhbond_nbd_refined 0.156 r_chiral_restr 0.083 r_nbtor_other 0.082 r_symmetry_hbond_refined 0.066 r_bond_refined_d 0.017 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2661 Nucleic Acid Atoms Solvent Atoms 61 Heterogen Atoms 58
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction