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Crystal structure of the N-terminal domain of group B Streptococcus alpha C protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other ALPHA C SELENOMETHIONYL MUTANT (2 SELENIUM ATOMS)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 294 sodium acetate, PEG4000, DTT, pH 4.60, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.88 57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.464 α = 90 b = 56.464 β = 90 c = 271.617 γ = 120
Symmetry Space Group P 61 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 77 CCD SBC-2 2000-12-15 M SINGLE WAVELENGTH 2 1 x-ray CCD ADSC QUANTUM 4 2004-06-15 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-ID 2 SYNCHROTRON NSLS BEAMLINE X26C NSLS X26C
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 1.86 40 95.1 0.053 29.88 14 19465
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 1.86 1.93 71.7 0.339 4.69
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-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 SAD THROUGHOUT ALPHA C SELENOMETHIONYL MUTANT (2 SELENIUM ATOMS) 1.86 39.53 19465 19465 2193 99.8 0.193 0.193 0.188 0.1899 0.233 0.2327 RANDOM 23.69
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] 0.09 0.04 0.09 -0.13
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 9.687 r_scbond_it 7.814 r_mcangle_it 5.16 r_dihedral_angle_1_deg 5.015 r_mcbond_it 3.332 r_angle_refined_deg 1.406 r_symmetry_vdw_refined 0.226 r_nbd_refined 0.198 r_symmetry_hbond_refined 0.152 r_xyhbond_nbd_refined 0.148
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 9.687 r_scbond_it 7.814 r_mcangle_it 5.16 r_dihedral_angle_1_deg 5.015 r_mcbond_it 3.332 r_angle_refined_deg 1.406 r_symmetry_vdw_refined 0.226 r_nbd_refined 0.198 r_symmetry_hbond_refined 0.152 r_xyhbond_nbd_refined 0.148 r_chiral_restr 0.108 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1409 Nucleic Acid Atoms Solvent Atoms 222 Heterogen Atoms 20
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling EPMR phasing REFMAC refinement