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udp-galactopyranose mutase from Klebsiella pneumoniae oxidised FAD
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1I8T PDB ENTRY 1I8T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 0.1M BIS-TRIS PH6.5, 50MM CACL2, 30% PEG550, pH 6.50
Crystal Properties Matthews coefficient Solvent content 2.35 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.675 α = 90 b = 85.675 β = 90 c = 99.793 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 IMAGE PLATE RIGAKU RAXIS IV MIRRORS 2003-07-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007
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 74.54 98.1 0.05 10.6 16.6 2160
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 2.12 88.6 0.17 4.3 9.1
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1I8T 2 74.54 24352 1293 88 0.195 0.193 0.247 RANDOM 34.83
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 0.09 0.18 -0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.531 r_dihedral_angle_4_deg 18.947 r_dihedral_angle_3_deg 15.493 r_dihedral_angle_1_deg 5.567 r_scangle_it 2.39 r_scbond_it 1.623 r_angle_refined_deg 1.203 r_mcangle_it 1.023 r_mcbond_it 0.613 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.531 r_dihedral_angle_4_deg 18.947 r_dihedral_angle_3_deg 15.493 r_dihedral_angle_1_deg 5.567 r_scangle_it 2.39 r_scbond_it 1.623 r_angle_refined_deg 1.203 r_mcangle_it 1.023 r_mcbond_it 0.613 r_nbtor_refined 0.308 r_symmetry_hbond_refined 0.261 r_nbd_refined 0.206 r_xyhbond_nbd_refined 0.158 r_symmetry_vdw_refined 0.145 r_chiral_restr 0.081 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 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 3118 Nucleic Acid Atoms Solvent Atoms 140 Heterogen Atoms 53
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALEPACK data scaling AMoRE phasing