Skip to main content
. 2015 Oct 15;10:6523–6539. doi: 10.2147/IJN.S89610

Table S5.

Structure statistics for the AMC NMR conformers in H2O/D2O (90/10)

NOE upper distance limits 125
Angle constraints 71
Residual target function, Å2 0.17±0.02
Residual NOE violations
Total Number >0.1 Å* 1
Maximum Å 0.24
Residual angle violations
Total number 0
Atomic pairwise RMSD,# Å
Backbone atoms (a.a. 1–11) 0.92±0.30
Heavy atoms (a.a. 1–11) 1.52±0.45
Ramachandran statistics
Residues in core regions 40.6%
Residues in allowed regions 57.5%
Residues in generous regions 1.9%
Residues in disallowed regions 0.0%

Notes:

*

Average CYANA1 violations;

#

evaluated with iCing;2

Procheck-NMR5 analysis (residues 1–11). Structures were generated from 125 NOE upper distance limits (52 intra-residue, 62 sequential, 8 medium-range, and 3 long-range); three upper and three lower distance limits were enforced for the disulfide bridge. Structure calculations initiated from 100 random conformers; in the end, the 20 structures with the lowest CYANA1 target functions and showing largest agreement with the experimental restraints were considered representative and, thus, incorporated in the NMR ensemble. These structures were additionally analyzed with the molecular graphic programs MOLMOL4 and UCSF Chimera5 and validated with iCing.2 Data are presented as mean ± standard deviation.

Abbreviations: a.a., amino acid; AMC, antimicrobial cyclic peptide; D2O, deuterium oxide; NMR, nuclear magnetic resonance; NOE, Nuclear Overhauser effect; RMSD, root mean square deviation; CYANA, Combined Assignment and Dynamics Algorithm for NMR Applications; UCSF, University of California San Francisco.