Table 1.
Parameter group and parameter | MNV VPg 11-85 | FCV VPg 9-79 |
---|---|---|
Restraints | ||
Total no. of restraints | 1,248 | 1,335 |
No. of NOE-derived restraints | 1,176 | 1,172 |
No. of unambiguous NOE restraints | 618 | 867 |
No. of ambiguous NOE restraints | 558 | 305 |
No. of intraresidual NOE restraints (|i − j| = 0)d | 262 | 373 |
No. of sequential NOE restraints (|i − j| = 1)d | 106 | 197 |
No. of medium-range NOE restraints (1 < |i − j| ≤ 4)d | 140 | 153 |
No. of long-range NOE restraints (|i − j| >4)d | 110 | 144 |
No. of Ψ/Φ dihedral angle restraints | 72 | 84 |
No. of HN RDC restraints | - | 37 |
No. of hydrogen bond restraints | - | 42 |
RMSD from exptl restraintsb | ||
Distance (Å) | 0.032 ± 0.001 | 0.057 ± 0.002 |
Dihedral angle (°) | 0.16 ± 0.07 | 0.755 ± 0.13 |
NOE/dihedral violations | ||
No. of NOE violations >0.5 Å | 0 | 0.4 ± 0.5 |
No. of NOE violations >0.3 Å | 0.60 ± 0.66 | 4.55 ± 1.6 |
No. of dihedral violations >5° | 0 | 0 |
RMSD from idealized covalent geometryb | ||
Bond (Å) | 0.0038 ± 0.0001 | 0.0058 ± 0.0002 |
Angle (°) | 0.48 ± 0.01 | 0.76 ± 0.02 |
Impropers (°) | 1.15 ± 0.06 | 2.01 ± 0.08 |
Energies (kcal/mol)b | ||
Etotal | −2,673.45 ± 86.02 | −2,047.81 ± 71.2 |
ENOE | 59.98 ± 1.84 | 198.41 ± 15.1 |
Ebond | 17.74 ± 1.38 | 36.61 ± 2.4 |
Eangle | 78.53 ± 4.10 | 165.8 ± 10.9 |
Evdw | −626.53 ± 6.15 | −655.064 ± 7.0 |
Coordinate RMSD (Å)b | ||
Backbone atoms in secondary structure | 0.32 ± 0.1 | 0.17 ± 0.03 |
All heavy atoms in secondary structure | 0.81 ± 0.1 | 0.54 ± 0.1 |
All backbone atoms | 6.61 ± 1.8 | 0.36 ± 0.1 |
All heavy atoms | 7.12 ± 1.8 | 0.66 ± 0.1 |
Ramachandran plotb,c | ||
Most favored (%) | 99.6 | 82.3 |
Allowed (%) | 0.4 | 14.4 |
Disallowed (%) | 0 | 3.3 |
PDB ID | 2M4G | 2M4H |
Structure statistics for MNV VPg 11-85 and FCV VPg 9-79. Averages are given with one standard deviation of the mean.
Determined with an ensemble of the lowest-energy 20 structures which were water refined.
Ramachandran statistics were calculated using MolProbity (65). These were calculated using the core domains of the proteins as determined by MolProbity (MNV VPg 21-55 and FCV VPg 17-73). PDB ID, Protein Data Bank identification number.