1IEH
SOLUTION STRUCTURE OF A SOLUBLE SINGLE-DOMAIN ANTIBODY WITH HYDROPHOBIC RESIDUES TYPICAL OF A VL/VH INTERFACE
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 3D combined 13C/15N-separated NOESY | 10mM sodium phosphate 150mM NaCl 0.2mM EDTA | 90% H2O/10% D2O | 0.16 | 6.8 | 1 atm | 303 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 800 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing using torsion angle and cartesian dynamics | NO MANUAL ASSIGNMENTS OF NOE PEAKS WERE INITIALLY PERFORMED - THE GLOBAL FOLD OF THE PROTEIN WAS DETERMINED USING RESTRAINTS WITH LOW AMBIGUITY. THE SET OF GLOBAL FOLD STRUCTURES SERVED AS AN ASSIGNMENT FILTER TO REDUCE THE AMBIGUITY OF THE OTHER RESTRAINTS. THE RESTRAINT LIST AND STRUCTURES WERE FURTHER REFINED BY MANUALLY CHOOSING POSSIBILITIES FROM THE RESTRAINTS WITH LOW AMBIGUITY (BASED ON THE SPECTRA). | NMRPipe |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 150 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | processing | NMRPipe | Frank Delaglio, Stephan Grzesiek, Ad Bax, Geerten W. Vuister, Guang Zhu, John Pfeifer | |
| 2 | data analysis | NMRView | 4.1.2 | Bruce Johnson and Richard Blevins |
| 3 | structure solution | ARIA | 1.0 | J. Linge and M. Nilges |
| 4 | structure solution | CNS | 1.0 | AT Brunger, PD Adams, GM Clore, WL DeLano, P Gros, RW Grosse-Kunstleve, JS Jiang, J Kuszewski, M Nilges, NS Pannu, RJ Read, LM Rice, T Simonson, GL Warren |
| 5 | refinement | ARIA | 1.0 | Linge, Nilges |
