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Crystal structure of conserved domain protein from vibrio cholerae o1 biovar eltor str. n16961
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 289 25% PEG 550 MME
0.01M ZINC SULFATE
0.1M BIS-TRIS PH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 3.93 68.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.256 α = 90 b = 144.256 β = 90 c = 144.256 γ = 90
Symmetry Space Group P 41 3 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray CCD ADSC QUANTUM 315 mirrors 2007-08-05 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97970, 0.97950, 1.28000 APS 19-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 2.2 40 100 0.099 10.3 30 26598 26598 2 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) 1 2.2 2.24 100 0.513 10 30 1311
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) 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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.2 40 2 2 25100 23804 1268 94.37 0.18 0.17966 0.17835 0.1926 0.20339 0.2195 RANDOM 22.907
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 r_dihedral_angle_2_deg 38.721 r_dihedral_angle_3_deg 14.42 r_dihedral_angle_4_deg 12.682 r_dihedral_angle_1_deg 5.582 r_scangle_it 5.093 r_scbond_it 3.043 r_mcangle_it 1.722 r_angle_refined_deg 1.676 r_angle_other_deg 0.97 r_mcbond_it 0.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.721 r_dihedral_angle_3_deg 14.42 r_dihedral_angle_4_deg 12.682 r_dihedral_angle_1_deg 5.582 r_scangle_it 5.093 r_scbond_it 3.043 r_mcangle_it 1.722 r_angle_refined_deg 1.676 r_angle_other_deg 0.97 r_mcbond_it 0.92 r_mcbond_other 0.25 r_chiral_restr 0.097 r_bond_refined_d 0.021 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2173 Nucleic Acid Atoms Solvent Atoms 111 Heterogen Atoms 26
Software Software Software Name Purpose SBC-Collect data collection HKL-3000 phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling