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Alanine racemase from Bacillus Anthracis (Ames)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SFT PDB entry 1sft
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 277 18 %PEG 8000, 0.2 M Sodium acetate, 0.1 M Sodium Cacodylate,
0.01 M GSH (L-Glutathione reduced), 0.01 M GSSG (L-Glutathione oxidized), pH 6.5, vapor diffusion, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.34 47.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.624 α = 90 b = 141.271 β = 103.11 c = 60.124 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 100 IMAGE PLATE RIGAKU RAXIS IV Osmic mirrors 2007-11-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.95 32.79 91.3 0.029 0.029 14.526 2.8 150355 53396 29.12
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.95 2.06 67.1 0.156 0.156 4.6 2.1 5695
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1sft 1.95 32.79 53387 1627 91.13 0.161 0.16 0.2223 0.201 0.2492 RANDOM 34.692
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] 1.56 0.55 -1.51 0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.734 r_dihedral_angle_4_deg 14.626 r_dihedral_angle_3_deg 13.2 r_dihedral_angle_1_deg 7.467 r_scangle_it 4.742 r_scbond_it 3.226 r_mcangle_it 1.912 r_angle_refined_deg 1.459 r_mcbond_it 1.273 r_chiral_restr 0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.734 r_dihedral_angle_4_deg 14.626 r_dihedral_angle_3_deg 13.2 r_dihedral_angle_1_deg 7.467 r_scangle_it 4.742 r_scbond_it 3.226 r_mcangle_it 1.912 r_angle_refined_deg 1.459 r_mcbond_it 1.273 r_chiral_restr 0.12 r_bond_refined_d 0.017 r_gen_planes_refined 0.014
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6068 Nucleic Acid Atoms Solvent Atoms 358 Heterogen Atoms 10
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection MOSFLM data reduction MOLREP phasing