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Crystal Structure of the replication initiator protein encoded on plasmid pMV158 (RepB), trigonal form, to 2.7 Ang resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 298 10% PEG 8000, 100 mM CaCl2, 50mM TRIS HCl, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.56 65.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.611 α = 90 b = 85.611 β = 90 c = 245.53 γ = 120
Symmetry Space Group P 32 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 210 2004-04-23 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC QUANTUM 210 2003-04-14 M SAD 3 1 x-ray 100 CCD ADSC QUANTUM 210 2003-07-12 M MAD 4 1 x-ray 100 CCD ADSC QUANTUM 210 2006-02-23 M MAD 5 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2006-02-14 M SAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 1.0052 ESRF ID29 2 SYNCHROTRON ESRF BEAMLINE ID14-4 0.97920 ESRF ID14-4 3 SYNCHROTRON ESRF BEAMLINE BM14 0.9791, 0.9686 ESRF BM14 4 SYNCHROTRON ESRF BEAMLINE ID29 1.07207, 1.07244, 1.06736 ESRF ID29 5 ROTATING ANODE RIGAKU 1.54179
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 1,2,3,4,5 2.7 24.95 99.9 0.1 15.1 6.5 29602 29572 -3 71.2
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) 2.7 2.85 100 0.748 2.4 6.7 4243
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 2.7 24.95 29518 28019 1499 100 0.23048 0.22814 0.2296 0.27574 0.2711 RANDOM 46.33
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] 1.46 0.73 1.46 -2.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.31 r_dihedral_angle_4_deg 25.398 r_dihedral_angle_3_deg 21.255 r_dihedral_angle_1_deg 5.387 r_scangle_it 2.081 r_angle_refined_deg 1.478 r_scbond_it 1.229 r_mcangle_it 0.975 r_mcbond_it 0.513 r_chiral_restr 0.091
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.31 r_dihedral_angle_4_deg 25.398 r_dihedral_angle_3_deg 21.255 r_dihedral_angle_1_deg 5.387 r_scangle_it 2.081 r_angle_refined_deg 1.478 r_scbond_it 1.229 r_mcangle_it 0.975 r_mcbond_it 0.513 r_chiral_restr 0.091 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4928 Nucleic Acid Atoms Solvent Atoms 122 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement ProDC data collection MOSFLM data reduction SCALA data scaling SHELX phasing DM phasing DMMulti phasing