5SXY

The solution NMR structure for the PqqD truncation of Methylobacterium extorquens PqqCD representing a functional and stand-alone ribosomally synthesized and post-translational modified (RiPP) recognition element (RRE)


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
13D HNCACB4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 900
22D 1H-15N HSQC4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 900
33D CBCA(CO)NH4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 900
43D HNCO4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 850
52D plane of 3D HCACO4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 850
63D HNHA4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 850
73D H(CCO)NH4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 850
83D C(CO)NH4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 850
93D HCCH-TOCSY4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 850
102D HBCBCGCDHD4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 850
112D HBCBCGCDCEHE4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 850
122D 1H-13C HSQC aromatic4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 850
132D 1H-13C HSQC aliphatic4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 850
142D plane of HCCH-TOCSY for aromatic ring4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 850
153D 15N-edited NOESY4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 900
163D 13C-edited NOESY4.6 mg/mL [U-13C; U-15N] PqqD95% H2O/5% D2O25 mM6.51 atm298Bruker AVANCE III 900
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE III850
2BrukerAVANCE III900
NMR Refinement
MethodDetailsSoftware
simulated annealingXPLOR-NIH
NMR Ensemble Information
Conformer Selection Criteriastructures with the lowest energy
Conformers Calculated Total Number100
Conformers Submitted Total Number20
Representative Model1 (lowest energy)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1collectionTopSpin3.1.6Bruker Biospin
2processingNMRPipeyear 2012Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
3data analysisSparky3Goddard and Kneller
6structure calculationXPLOR-NIH2.37Schwieters
7refinementProtein Structure Validation Suite (PSVS)1.5http://psvs-1_5-dev.nesg.org/