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Crystal structure of Putative NADH Oxidase (NP_348178.1) from CLOSTRIDIUM ACETOBUTYLICUM at 1.40 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 20.0000% PEG-8000, 0.1M HEPES pH 7.5, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K, VAPOR DIFFUSION, SITTING DROP
Crystal Properties Matthews coefficient Solvent content 2.26 45.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.077 α = 90 b = 83.528 β = 90 c = 51.891 γ = 90
Symmetry Space Group P 21 21 2
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) 2008-07-17 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837,0.97908,0.97849 SSRL BL11-1
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 1.4 29.273 100 0.096 0.096 3.7 70997 10.08
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) 1.4 1.44 100 0.501 0.501 1.5 3.6 5198
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 1.4 29.273 70948 3583 99.97 0.132 0.13 0.1365 0.168 0.1723 RANDOM 9.24
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] 0.02 -0.05 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.53 r_dihedral_angle_4_deg 15.166 r_dihedral_angle_3_deg 11.942 r_sphericity_free 6.841 r_dihedral_angle_1_deg 6.22 r_scangle_it 5.868 r_scbond_it 4.363 r_sphericity_bonded 3.706 r_mcangle_it 3.06 r_mcbond_it 2.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.53 r_dihedral_angle_4_deg 15.166 r_dihedral_angle_3_deg 11.942 r_sphericity_free 6.841 r_dihedral_angle_1_deg 6.22 r_scangle_it 5.868 r_scbond_it 4.363 r_sphericity_bonded 3.706 r_mcangle_it 3.06 r_mcbond_it 2.49 r_rigid_bond_restr 1.773 r_angle_refined_deg 1.569 r_mcbond_other 1.428 r_angle_other_deg 1.012 r_nbd_refined 0.224 r_symmetry_vdw_other 0.224 r_nbd_other 0.208 r_nbtor_refined 0.182 r_xyhbond_nbd_refined 0.179 r_symmetry_hbond_refined 0.162 r_symmetry_vdw_refined 0.16 r_chiral_restr 0.093 r_nbtor_other 0.088 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2860 Nucleic Acid Atoms Solvent Atoms 519 Heterogen Atoms 134
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHELXD phasing autoSHARP phasing