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Crystal Structures of Two Intermediates in the Assembly of the Papillomavirus Replication Initiation Complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F08 PDB ENTRY 1F08
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 290 MgSO4, spermine tetrahydrochloride, ethylene glycol, DTT, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 3.8 67.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 149.111 α = 90 b = 110.6 β = 116.85 c = 75.084 γ = 90
Symmetry Space Group C 1 2 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 CCD ADSC QUANTUM 4 mirrors 2000-07-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C NSLS X26C
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 3.05 50 99.8 0.108 10.2 3.5 20851 -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) 3.05 3.16 99.6 0.478 1.6 3.59 2091
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-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1F08 3.05 35.53 20829 19115 842 91.8 0.277 0.316 RANDOM 68.6
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] 43.23 0.35 -8.97 -34.26
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 25.38 c_mcangle_it 19.92 c_dihedral_angle_d 19.9 c_scbond_it 17.94 c_mcbond_it 13.11 c_angle_deg 0.9 c_improper_angle_d 0.78 c_bond_d 0.003 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 25.38 c_mcangle_it 19.92 c_dihedral_angle_d 19.9 c_scbond_it 17.94 c_mcbond_it 13.11 c_angle_deg 0.9 c_improper_angle_d 0.78 c_bond_d 0.003 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_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3510 Nucleic Acid Atoms 1282 Solvent Atoms 3 Heterogen Atoms
Software Software Software Name Purpose AMoRE phasing CNS refinement DENZO data reduction SCALEPACK data scaling