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Dynamin 1 GTPase dimer, short axis form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2X2E PDB ENTRY 2X2E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 HANGING DROP VAPOR DIFFUSION IN 0.1M TRIS PH 8.5, 25% PEG 3350, 200MM NACL, 25-35% NAF USING A DROP SIZE OF 2-10 MICROL AND A RESERVOIR VOLUME OF 750 MICROL. CRYSTALS GREW IN 4-5 DAYS AT EITHER 17C OR 20C.
Crystal Properties Matthews coefficient Solvent content 1.97 37.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.444 α = 90 b = 81.274 β = 90 c = 175.697 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 MARRESEARCH SAGGITALY FOCUSING MONOCHROMATOR, REFLECTING MIRROR 2009-03-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID APS 22-ID
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 99.8 0.07 19.2 7.02 42969 -3
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 2 2.05 99.5 0.17 10.1 6.89
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 2X2E 2 30 42969 867 99.8 0.2 0.2 0.1929 0.254 0.2462 RANDOM 23.6
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]
RMS Deviations Key Refinement Restraint Deviation c_angle_deg 2.55 c_bond_d 0.009 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d
RMS Deviations Key Refinement Restraint Deviation c_angle_deg 2.55 c_bond_d 0.009 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d c_improper_angle_d_na c_improper_angle_d_prot c_mcbond_it c_mcangle_it c_scbond_it c_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5252 Nucleic Acid Atoms Solvent Atoms 321 Heterogen Atoms 70
Software Software Software Name Purpose CNS refinement XDS data reduction XSCALE data scaling AMoRE phasing