Table 2. Summary of the Restraints Employed for the Final Ensemble of 80 Retained Structures from 200 Calculated Structuresa.
structure calculation parameter | apelin-17 with SDS | apelin-17 in bufferb |
---|---|---|
total rounds of NOE refinement | 8 | 12 |
unique NOE restraints | ||
total | 522 | 285 |
intraresidue | 248 | 146 |
sequential | 188 | 108 |
medium range (|i − j| ≤ 4) | 46 | 22 |
long range (|i − j| > 4) | 0 | 0 |
ambiguous | 40 | 9 |
Ramachandran plot statistics | ||
core | 33% | 26% |
allowed | 51% | 52% |
generously allowed | 10% | 10% |
disallowed | 6% | 13% |
number of type I β-turns | 45 | 9 |
number of type IV β-turns | 274 | 123 |
number of type VIII β-turns | 6 | 10 |
XPLOR-NIH energies (kcal/mol) | ||
total | 26.9 ± 2.1 | 45.14 ± 5.39 |
NOE | 4.6 ± 1.0 | 0.60 ± 0.49 |
violations | ||
NOE violations >0.5 Å | 0 | 0 |
NOE violations of 0.3−0.5 Å | 1 | 0 |
NOE violations of 0.2−0.3 Å | 4 | 4 |
Classification of NOE restraints using CYANA, LA Systems, Tokyo, Japan. XPLOR-NIH energies and average deviations and violation occurrences calculated using an in-house tcl/Tk script. Structural statistics for apelin-17 in buffer at 35 °C are shown for comparison.
Previously reported data.(15)