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Crystal structure of xenopus laevis replication initiation factor MCM10 internal domain
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 294 PEG 4000, TRIS, KSCN, pH 8.00, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.55 51.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.565 α = 90 b = 94.414 β = 112.79 c = 69.775 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 110 CCD MARMOSAIC 300 mm CCD 2007-03-10 M SINGLE WAVELENGTH 2 1 x-ray 110 CCD MARMOSAIC 300 mm CCD 2006-06-10 M MAD 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID 2 SYNCHROTRON APS BEAMLINE 22-ID 1.0388, 1.0311, 1.0370 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 2.3 50 99.6 0.074 27.7 6.7 29404 48.4
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 2.3 2.38 97 0.425 2.3 3.9 2882
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.3 44.4 28929 1481 99.73 0.2046 0.2046 0.2023 0.2063 0.2471 RANDOM 55.685
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] -1.65 -0.73 0.71 0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.584 r_dihedral_angle_4_deg 20.488 r_dihedral_angle_3_deg 20.026 r_dihedral_angle_1_deg 6.919 r_scangle_it 2.973 r_scbond_it 1.814 r_angle_refined_deg 1.572 r_mcangle_it 1.369 r_mcbond_it 0.781 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.584 r_dihedral_angle_4_deg 20.488 r_dihedral_angle_3_deg 20.026 r_dihedral_angle_1_deg 6.919 r_scangle_it 2.973 r_scbond_it 1.814 r_angle_refined_deg 1.572 r_mcangle_it 1.369 r_mcbond_it 0.781 r_nbtor_refined 0.304 r_nbd_refined 0.219 r_symmetry_vdw_refined 0.214 r_symmetry_hbond_refined 0.186 r_xyhbond_nbd_refined 0.152 r_chiral_restr 0.123 r_metal_ion_refined 0.042 r_bond_refined_d 0.014 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4123 Nucleic Acid Atoms Solvent Atoms 149 Heterogen Atoms 3
Software Software Software Name Purpose HKL-2000 data collection SHARP phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling