1IOJ
HUMAN APOLIPOPROTEIN C-I, NMR, 18 STRUCTURES
SOLUTION NMR
NMR Experiment | ||||||||
---|---|---|---|---|---|---|---|---|
Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D-NOESY | 5.8 mM native apoC-I, 90%H2O/10%D2O, 232 mM SDS-D25 | 90% H2O/10% D2O | 4.8 | 323 | |||
2 | 2D-TOCSY | 5 mM selectively 15N-labeled synthetic apoC-I, 90%H2O/10%D2O, 200 mM SDS-D25 | 90% H2O/10% D2O | 4.8 | 323 | |||
3 | DQF-COSY | 5 mM selectively 15N-labeled synthetic apoC-I, 90%H2O/10%D2O, 200 mM SDS-D25 | 90% H2O/10% D2O | 4.8 | 323 | |||
4 | 2D-15N-FILTERED NOESY | 5 mM selectively 15N-labeled synthetic apoC-I, 90%H2O/10%D2O, 200 mM SDS-D25 | 90% H2O/10% D2O | 4.8 | 323 | |||
5 | 2D-15N-FILTERED TOCSY | 5 mM selectively 15N-labeled synthetic apoC-I, 90%H2O/10%D2O, 200 mM SDS-D25 | 90% H2O/10% D2O | 4.8 | 323 | |||
6 | 2D 1H-15N HSQC | 5 mM selectively 15N-labeled synthetic apoC-I, 90%H2O/10%D2O, 200 mM SDS-D25 | 90% H2O/10% D2O | 4.8 | 323 | |||
7 | 3D-NOESY-HSQC | 5 mM selectively 15N-labeled synthetic apoC-I, 90%H2O/10%D2O, 200 mM SDS-D25 | 90% H2O/10% D2O | 4.8 | 323 | |||
8 | 3D-TOCSY-HSQC | 5 mM selectively 15N-labeled synthetic apoC-I, 90%H2O/10%D2O, 200 mM SDS-D25 | 90% H2O/10% D2O | 4.8 | 323 | |||
9 | 2D-NOESY | 5 mM selectively 15N-labeled synthetic apoC-I, 90%H2O/10%D2O, 200 mM SDS-D25 | 90% H2O/10% D2O | 4.8 | 323 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AMX 600 | 600 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
DISTANCE GEOMETRY AND SIMULATED ANNEALING | THE STRUCTURE OF APOC-I(1-38) IN THE PRESENCE OF SODIUM DODECYL SULFATE WAS REFINED USING 685 NOE-BASED DISTANCE RESTRAINTS. NO DIHEDRAL RESTRAINTS AND NO H-BOND RESTRAINTS WERE USED. THIS ENTRY CONTAINS 18 ACCEPTED OUT OF 50 CALCULATED STRUCTURES. STRUCTURE CALCULATIONS WERE PERFORMED WITH THE PROGRAMS DGII AND DISCOVER INCLUDING DISTANCE GEOMETRY CALCULATIONS, SIMULATED ANNEALING AND ENERGY MINIMIZATION WITH A CONJUGATED GRADIENT. THE CVFF FORCEFIELD WAS USED. ALL FORMAL CHARGES WERE SWITCHED OFF. THE DIELECTRIC CONSTANT WAS SET TO 1. THE LENNARD-JONES POTENTIAL WAS USED FOR NON-BOND INTERACTIONS (CUTOFF 12A). FOR DETAILS ON STRUCTURE CALCULATION, RMSDS AND FINAL ENERGIES PLEASE SEE REFERENCE CITED UNDER "JRNL". | DGII, DISCOVER |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | SELECTED STRUCTURES HAVE NO HELIX-HELIX CONTACTS <5 ANGSTROMS |
Conformers Calculated Total Number | 50 |
Conformers Submitted Total Number | 18 |
Representative Model | 15 (n/a) |
Additional NMR Experimental Information | |
---|---|
Details | USING WATERGATE FOR WATER SUPPRESSION, 2D-TOCSY USING MLEV-17 FOR MIXING, 3D-TOCSY USING DIPSY-2RC FOR MIXING. 15N-FILTERED NOESY AND TOCSY INCLUDE DIFFERENCE (SHOWING ONLY 15N LABELED RESIDUES) AND SUM SPECTRA (SHOWING ONLY UNLABELED RESIDUES). |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | refinement | DGII, DISCOVER | DISCOVER | MOLECULAR SIMULATIONS INC, SAN DIEGO |
2 | structure solution | DGII AND DISCOVER | DISCOVER | MOLECULAR SIMULATIONS INC, SAN DIEGO |