9GAG
Human PEX5 TPR domain in complex with PEX14 KIPSWQIPV peptide
SOLUTION NMR
NMR Experiment | ||||||||
---|---|---|---|---|---|---|---|---|
Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 3D 1H-13C NOESY | 0.4 mM [U-100% 13C; U-100% 15N; U-80% 2H] human PEX5 TPR domain, 4 mM PEX14 KIPSWQI, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM DTT | 93% H2O/7% D2O | 83 mM | 6.5 | 1 atm | 298 | Bruker AVANCE III 900 |
2 | 2D 1H-1H NOESY | 1 mM PEX14 KIPSWQI, 20 mM sodium phosphate, 50 mM sodium chloride | 93% H2O/7% D2O | 83 mM | 6.5 | 1 atm | 298 | Bruker AVANCE III 500 |
3 | 2D 1H-1H TOCSY | 1 mM PEX14 KIPSWQI, 20 mM sodium phosphate, 50 mM sodium chloride | 93% H2O/7% D2O | 83 mM | 6.5 | 1 atm | 298 | Bruker AVANCE III 500 |
4 | 2D 1H-13C HSQC | 1 mM PEX14 KIPSWQI, 20 mM sodium phosphate, 50 mM sodium chloride | 93% H2O/7% D2O | 83 mM | 6.5 | 1 atm | 298 | Bruker AVANCE III 500 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE III | 900 |
2 | Bruker | AVANCE III | 500 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
molecular dynamics | CcpNmr Analysis |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 200 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | collection | TopSpin | 3.6 | Bruker Biospin |
2 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
3 | peak picking | NMRFAM-SPARKY | 3 | T. D. Goddard and D. G. Kneller, SPARKY 3, University of California, San Francisco |
4 | peak picking | CcpNmr Analysis | 2.4.2 | CCPN |
5 | chemical shift assignment | NMRFAM-SPARKY | T. D. Goddard and D. G. Kneller, SPARKY 3, University of California, San Francisco | |
7 | structure calculation | CYANA | 3.3 | Guntert, Mumenthaler and Wuthrich |
8 | structure calculation | HADDOCK | 2.4 | Bonvin |
9 | refinement | HADDOCK | 2.4 | Bonvin |