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ARF1[DELTA 1-17]-GDP-MG IN COMPLEX WITH BREFELDIN A AND A SEC7 DOMAIN
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RRG PDB ENTRY 1RRG and coordinates of arf1[D1-17]/Gea2-Sec7 (Goldberg, J., (1998) Cell 95(2): 237-48)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 289 29% PEG 3350, 40MM NH4CL, 40MM POTASSIUM FORMATE, 100MM TRIS, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.73 55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 111.462 α = 90 b = 111.462 β = 90 c = 74.534 γ = 90
Symmetry Space Group P 41 21 2
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 MARRESEARCH mirrors 2003-04-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.980 ESRF BM30A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.8 30 98.1 0.05 26.2 12 43814 43814 22.76
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.85 97.1 0.405 6.4 12.1 3319
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1RRG and coordinates of arf1[D1-17]/Gea2-Sec7 (Goldberg, J., (1998) Cell 95(2): 237-48) 1.8 29.88 43814 41588 2225 99.54 0.184 0.18397 0.18193 0.1905 0.22148 0.2236 RANDOM 19.91
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] -1.95 -1.95 3.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.862 r_scangle_it 5.065 r_scbond_it 3.243 r_mcangle_it 2.081 r_angle_refined_deg 1.94 r_mcbond_it 1.233 r_angle_other_deg 0.999 r_symmetry_vdw_other 0.284 r_nbd_other 0.256 r_symmetry_vdw_refined 0.249
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.862 r_scangle_it 5.065 r_scbond_it 3.243 r_mcangle_it 2.081 r_angle_refined_deg 1.94 r_mcbond_it 1.233 r_angle_other_deg 0.999 r_symmetry_vdw_other 0.284 r_nbd_other 0.256 r_symmetry_vdw_refined 0.249 r_nbd_refined 0.226 r_xyhbond_nbd_refined 0.176 r_symmetry_hbond_refined 0.148 r_chiral_restr 0.128 r_nbtor_other 0.09 r_bond_refined_d 0.025 r_gen_planes_refined 0.01 r_gen_planes_other 0.006 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2830 Nucleic Acid Atoms Solvent Atoms 286 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement MAR345 data collection XDS data scaling CCP4 phasing