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NMR structure of ProteinMPNN-desighed ubiquitin variant R4 at pH 6.3 with 8 M urea
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-15N HSQC 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 2 2D 1H-13C HSQC 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 3 2D 1H-13C HSQC aliphatic 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 4 3D HNCA 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 5 3D HN(CO)CA 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 10 3D HNCO 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 9 3D HN(CA)CO 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 8 3D HNCACB 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 7 3D CBCA(CO)NH 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 6 3D HBHA(CO)NH 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 14 3D H(CCO)NH 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 13 3D C(CO)NH 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 12 3D HCCH-TOCSY 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 11 3D CCH-TOCSY 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 16 3D 1H-15N TOCSY 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 15 3D 1H-15N NOESY 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850 17 3D 1H-13C NOESY aliphatic 1 mM [U-100% 13C; U-100% 15N] ProteinMPNN-designed ubiquitin variant R4 93% H2O/7% D2O 80 mM 6.3 1 atm 300 Bruker AVANCE NEO 850
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE NEO 850
NMR Refinement Method Details Software simulated annealing X-PLOR NIH
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 150 Conformers Submitted Total Number 20 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 processing NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 2 structure calculation X-PLOR NIH 3.9 Schwieters, Kuszewski, Tjandra and Clore 3 chemical shift assignment ARTINA Klukowski, P., Riek, R. and Guntert, P. 4 chemical shift assignment I-PINE Lee, Bahrami, Dashti, Eghbalnia, Tonelli, Westler and Markley