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Solution structure of uncharacterized thioredoxin-like protein PG_2175 from Porphyromonas gingivalis
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 15N HSQC 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 90% H2O/10% D2O 10 4.5 1 atm 298 2 15N NOESY-HSQC 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 90% H2O/10% D2O 10 4.5 1 atm 298 3 13C HSQC 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 100% D2O 10 4.5 1 atm 298 4 aromatic 13C HSQC 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 100% D2O 10 4.5 1 atm 298 5 13C NOESY-HSQC 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 100% D2O 10 4.5 1 atm 298 6 13C aromatic NOESY-HSQC 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 100% D2O 10 4.5 1 atm 298 7 HNCO 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 90% H2O/10% D2O 10 4.5 1 atm 298 8 HNCACO 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 90% H2O/10% D2O 10 4.5 1 atm 298 9 HNCA 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 90% H2O/10% D2O 10 4.5 1 atm 298 10 HNCOCA 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 90% H2O/10% D2O 10 4.5 1 atm 298 11 HNCACB 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 90% H2O/10% D2O 10 4.5 1 atm 298 12 CBCACONH 10mM Na acetate buffer pH 4.5, 3mM DTT, 0.1mM EDTA 90% H2O/10% D2O 10 4.5 1 atm 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 600 2 Bruker AVANCE 700
NMR Refinement Method Details Software simulating annealing Refinement in a box of water using XPLOR-NIH CNS
NMR Ensemble Information Conformer Selection Criteria 20 structures for lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 20 Representative Model 1 (lowest energy)
Additional NMR Experimental Information Details All 3Ds were collected as NUS (30%) using the MDDNMR approach
Computation: NMR Software # Classification Version Software Name Author 1 structure calcuation CNS 1.21 Brunger A. T. et.al. 2 structure calcuation ARIA 2.3 Linge, O'Donoghue and Nilges 3 structure solution X-PLOR NIH 2.32 Schwieters, Kuszewski, Tjandra and Clore 4 refinement X-PLOR NIH 2.32 Schwieters, Kuszewski, Tjandra and Clore 5 data analysis CCPN_Analysis 2.2 CCPN 6 chemical shift assignment CCPN_Analysis 2.2 CCPN 7 collection MddNMR 2.2 (MDDNMR) Orekhov, Jaravine, Kazimierczuk 8 processing MddNMR 2.2 (MDDNMR) Orekhov, Jaravine, Kazimierczuk 9 collection MDDGUI (MDDGUI) Lemak, Gutmanas, Chitayat, Karra, Fares, Sunnerhagen, Arrowsmith 10 processing MDDGUI (MDDGUI) Lemak, Gutmanas, Chitayat, Karra, Fares, Sunnerhagen, Arrowsmith 11 processing NMRPipe 7.5 Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 12 data analysis SideR Hansen 13 collection VnmrJ 2.2D Varian 14 collection TopSpin 2.1 Bruker Biospin 15 data analysis MolProbity Richardson 16 refinement CNS