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Crystal structure of a putative HmuY_like heme binding protein (BVU_2192) from Bacteroides vulgatus ATCC 8482 at 2.12 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1M bicine pH 9, 1.6M ammonium sulfate, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.415 α = 90 b = 128.415 β = 90 c = 110.785 γ = 120
Symmetry Space Group P 31 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 100 CCD MARMOSAIC 325 mm CCD Flat mirror (vertical focusing); single crystal Si(111) bent monochromator (ho rizontal focusing) 2011-07-20 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837,0.97922,0.97889 SSRL BL11-1
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 2.12 78.487 100 0.118 9.6 5.7 60126 60126
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 2.12 2.23 100 0.01 1.019 0.7 5.8 8674
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2.12 78.487 60066 3029 99.87 0.1651 0.1647 0.1737 0.1724 0.1781 RANDOM 48.5786
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] 1.9 0.95 1.9 -2.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.671 r_dihedral_angle_4_deg 14.484 r_dihedral_angle_3_deg 11.171 r_dihedral_angle_1_deg 4.408 r_angle_refined_deg 1.822 r_angle_other_deg 1.343 r_chiral_restr 0.111 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.671 r_dihedral_angle_4_deg 14.484 r_dihedral_angle_3_deg 11.171 r_dihedral_angle_1_deg 4.408 r_angle_refined_deg 1.822 r_angle_other_deg 1.343 r_chiral_restr 0.111 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d 0.003 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2893 Nucleic Acid Atoms Solvent Atoms 275 Heterogen Atoms 104
Software Software Software Name Purpose MolProbity model building PDB_EXTRACT data extraction SOLVE phasing SCALA data scaling REFMAC refinement MOSFLM data reduction