1RL5
NMR structure with tightly bound water molecule of cytotoxin I from Naja oxiana in aqueous solution (major form)
SOLUTION NMR
NMR Experiment | ||||||||
---|---|---|---|---|---|---|---|---|
Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 20mM Cytotoxin I, 50mM KCl, H2O | KCl: 50mM, H2O | 50 mM | 6.0 | normal | 323 | |
2 | 2D TOCSY | 20mM Cytotoxin I, 50mM KCl, H2O | KCl: 50mM, H2O | 50 mM | 6.0 | normal | 323 | |
3 | DQF-COSY | 20mM Cytotoxin I, 50mM KCl, H2O | KCl: 50mM, H2O | 50 mM | 6.0 | normal | 323 | |
4 | 2D NOESY | 20mM Cytotoxin I, 50mM KCl, D2O | KCl: 50mM, D2O | 50 mM | 6.0 | normal | 323 | |
5 | 2D TOCSY | 20mM Cytotoxin I, 50mM KCl, D2O | KCl: 50mM, D2O | 50 mM | 6.0 | normal | 323 | |
6 | DQF-COSY | 20mM Cytotoxin I, 50mM KCl, D2O | KCl: 50mM, D2O | 50 mM | 6.0 | normal | 323 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DRX | 500 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
torsion angle dynamics | 478 NOE-derived constraints, 202 angular constraints, 186 constraints for 31 hydrogen bonds, 24 constraints for 4 SS-bonds | XwinNMR |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | target function |
Conformers Calculated Total Number | 400 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Additional NMR Experimental Information | |
---|---|
Details | Cytotoxin I major and minor conformational states (in ratio of 6:1) in aqueous solution, corresponding to trans and cis val7-pro8 peptide bond conformations, were established via NMR spectra analysis. Here is the obtained major structure of cytotoxin I. The presented at HETATM section HOH in each model are tightly bound water molecules (with longer than for bulk water lifetimes nearby protein), reaveled by NMR approach. The principle of apportionment of these water molecules differs from that in crystal structures, for which the water molecules being at the proximity to protein are indicated. |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | collection | XwinNMR | 3.1.a | |
2 | processing | XwinNMR | 3.1.a | |
3 | data analysis | XEASY | 1.2.11 | Bartels. C. |
4 | structure solution | CYANA | 1.0.6 | Guntert, P. |
5 | processing | NMRPipe | April 12, 2001 | Delagio, F. |
6 | data analysis | ACME | 2001.085.20.47 | Delagio, F. |
7 | refinement | CYANA | 1.0.6 | Guntert, P. |