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Structure of a Vps23-C:Vps28-N subcomplex
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 277 5mg/ml protein solution containing 40 mM TRIS pH 7.4, 120 mM NaCl, and 20 mM DDAO was mixed with equal volume of crystallant containing 13% PEG 3350, 200 mM MgCl2 and 20% glycerol., VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.85 56.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.239 α = 90 b = 119.252 β = 90 c = 125.391 γ = 90
Symmetry Space Group I 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 MARRESEARCH 2005-06-11 M MAD 2 1 x-ray 100 CCD MARRESEARCH 2005-07-29 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.9190, 0.9800 SSRL BL9-2 2 SYNCHROTRON APS BEAMLINE 22-ID 0.9795 APS 22-ID
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 1,2 2.1 20 97.9 0.075 20.5 6.1 26400 25067
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) 1,2 2.1 2.17 87.2 0.285 4.8 3.7 2309
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 MAD THROUGHOUT 2.1 19.51 26400 25067 1332 100 0.24168 0.24065 0.2412 0.26096 0.2272 RANDOM 59.108
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] 1.62 0.44 -2.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.978 r_dihedral_angle_4_deg 15.56 r_dihedral_angle_3_deg 14.436 r_dihedral_angle_1_deg 3.907 r_scangle_it 1.797 r_scbond_it 1.106 r_angle_refined_deg 0.946 r_mcangle_it 0.675 r_mcbond_it 0.408 r_nbtor_refined 0.292
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.978 r_dihedral_angle_4_deg 15.56 r_dihedral_angle_3_deg 14.436 r_dihedral_angle_1_deg 3.907 r_scangle_it 1.797 r_scbond_it 1.106 r_angle_refined_deg 0.946 r_mcangle_it 0.675 r_mcbond_it 0.408 r_nbtor_refined 0.292 r_symmetry_vdw_refined 0.201 r_nbd_refined 0.193 r_xyhbond_nbd_refined 0.146 r_symmetry_hbond_refined 0.112 r_chiral_restr 0.059 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2760 Nucleic Acid Atoms Solvent Atoms 40 Heterogen Atoms 113
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing