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Structure of Maleyl Pyruvate Isomerase, a bacterial glutathione-s- transferase in Zeta class, in complex with substrate analogue dicarboxyethyl glutathione
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2C1R PDB ENTRY 2C1R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 MOTHER LIQOUR: RESERVOIR SOLUTION: DROP: 1 UL MOTHERLIQUOR, I UL RESERVOIR, 1 UL BENZAMIDINE, pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.72 55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.659 α = 90 b = 60.34 β = 93.22 c = 81.68 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 CCD MARRESEARCH 2006-07-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 ESRF BM14
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 1.2 27.6 74.7 0.03 16.8 3.3 394142
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 1.2 1.27 11.9 0.4 2.3
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 2C1R 1.3 43.11 106788 5652 89.6 0.151 0.15 0.1809 0.165 0.1913 RANDOM 11.95
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] -0.18 0.04 -0.04 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.522 r_dihedral_angle_4_deg 18.787 r_dihedral_angle_3_deg 11.04 r_dihedral_angle_1_deg 4.613 r_scangle_it 3.346 r_scbond_it 2.19 r_mcangle_it 1.434 r_angle_refined_deg 1.192 r_mcbond_it 0.791 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.522 r_dihedral_angle_4_deg 18.787 r_dihedral_angle_3_deg 11.04 r_dihedral_angle_1_deg 4.613 r_scangle_it 3.346 r_scbond_it 2.19 r_mcangle_it 1.434 r_angle_refined_deg 1.192 r_mcbond_it 0.791 r_nbtor_refined 0.309 r_nbd_refined 0.196 r_symmetry_vdw_refined 0.153 r_symmetry_hbond_refined 0.11 r_xyhbond_nbd_refined 0.101 r_chiral_restr 0.087 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3350 Nucleic Acid Atoms Solvent Atoms 717 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing