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Crystal analysis of chorismate mutase from thermus thermophilus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ODE PROTOMER A OF PDB ENTRY 1ODE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 7 291 SODIUM MALONATE, MES, pH 7.0, MICRO BATCH, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.71 54.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.252 α = 90 b = 71.252 β = 90 c = 152.36 γ = 120
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 V mirrors 2002-11-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL26B1 0.8 SPring-8 BL26B1
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 0.95 50 97.2 0.05 22.2 4.7 93458 90841 -1 2.7
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 0.95 0.96 59.7 0.345 1.5 2.5
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 MOLECULAR REPLACEMENT THROUGHOUT PROTOMER A OF PDB ENTRY 1ODE 0.96 10 88990 88990 4471 98.1 0.1099 0.1099 0.1099 0.1257 0.1274 0.1283 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 5 963.52 1043.55
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.117 s_zero_chiral_vol 0.111 s_approx_iso_adps 0.097 s_similar_adp_cmpnt 0.05 s_anti_bump_dis_restr 0.049 s_angle_d 0.031 s_from_restr_planes 0.0308 s_bond_d 0.018 s_rigid_bond_adp_cmpnt 0.007 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 941 Nucleic Acid Atoms Solvent Atoms 132 Heterogen Atoms 56
Software Software Software Name Purpose HKL-2000 data collection SCALEPACK data scaling CNS refinement SHELXL-97 refinement HKL-2000 data reduction CNS phasing