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Crystal structure of a Putative nitrate transport protein (TVN0104) from THERMOPLASMA VOLCANIUM at 1.35 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.33 277 0.25M calcium chloride, 14.0% 2-propanol, 0.1M sodium acetate pH 4.33, temperature 277K, NANODROP, VAPOR DIFFUSION, SITTING DROP 2 VAPOR DIFFUSION, SITTING DROP 4.33 277 0.25M calcium chloride, 22.0% 2-propanol, 0.1M sodium acetate pH 4.33, temperature 277K, NANODROP, VAPOR DIFFUSION, SITTING DROP
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.042 α = 90 b = 80.04 β = 104.67 c = 42.522 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 MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2010-03-10 M SINGLE WAVELENGTH 2 2 x-ray 100 CCD MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2010-02-11 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837 SSRL BL9-2 2 SYNCHROTRON SSRL BEAMLINE BL11-1 0.97959, 0.91837, 0.97917 SSRL BL11-1
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 1.35 41.13 99.5 0.055 14.71 4.88 49540 -3 19.818
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 1.35 1.4 96.5 0.503 2.2
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 1.35 41.13 49502 2500 99.59 0.121 0.119 0.1283 0.155 0.1632 RANDOM 18.029
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] 1.04 0.26 -0.48 -0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.163 r_dihedral_angle_4_deg 14.712 r_dihedral_angle_3_deg 12.329 r_scangle_it 6.852 r_dihedral_angle_1_deg 5.771 r_scbond_it 4.845 r_mcangle_it 3.535 r_mcbond_it 2.531 r_rigid_bond_restr 1.782 r_angle_refined_deg 1.661
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.163 r_dihedral_angle_4_deg 14.712 r_dihedral_angle_3_deg 12.329 r_scangle_it 6.852 r_dihedral_angle_1_deg 5.771 r_scbond_it 4.845 r_mcangle_it 3.535 r_mcbond_it 2.531 r_rigid_bond_restr 1.782 r_angle_refined_deg 1.661 r_angle_other_deg 0.984 r_mcbond_other 0.92 r_chiral_restr 0.103 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d 0.004 r_gen_planes_other 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1809 Nucleic Acid Atoms Solvent Atoms 273 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing