Index
Beta-Catenin, 16.20
Chemical Label, 6.8.11
Bioactive Conformation, 16.20
Interaction Diagram, 16.3.7
Blast, 22.2.25
bioisostere, 10.9.1
BlastDB Directory, 4.20.2
chemical label, 6.8.11
alphas, 6.8.3
from PDB, 10.1.1
C2′-endo pucker, 5.5.11
interaction diagram, 10.6
C3′-endo pucker, 5.5.11
screening, 15
CHEMRIYA, 13.5
COLLADA, 3.6.1.7
depiction, 10.20.2
CPK, 3.7.1
Chemical Cluster, 21.6.3
Search, 21.6.2
interactive ligand editor, 3.7.5
CisTransAmide Angle, 13.1.9.4
ligand editor, 16.3.4
Clash Threshold, 4.20.10
object, 6.3.9
Computational Chemistry, 16.20
Computer-Aided Drug Discovery (CADD), 16.20
print, 6.7
Covalent Geometry., 16.20
printing, 6.7
screening, 15
Decomposition, 10.36.3
stereo, 6.6
Design Evolution, 12.10
3DMOLT, 18.5
Display, 22.2.26
3DQsar, 11.4
Distance, 13.1.9.4
3D_Similarity_PDB_Search, 5.7
Dock Directory, 4.20.2
3Dqsar tutorial, 21.14
Docking, 22.2.26
bioisostere, 10.9.2
Drug Bank, 4.16.7
predict, 5.6
Design, 16.20
helices strands, 5.6.1
Editor, 4.20.2
local flexibility, 5.6.4
Eintl, 12.1.10
protein health, 5.6.3
Error in saving configuration settings: You are not a license administrator, 22.1.10
tools identify ligand binding pocket, 5.6.6
Extended Amino Acids, 16.20
oda, 5.6.5
FILTER.Z, 4.20.2
gz, 4.20.2
dock, 16.15
uue, 4.20.2
docking, 4.16.1
FTP.createFile, 4.20.11
64, 22.1.3
keep File, 4.20.11
A-form RNA, 5.5.11
proxy, 4.20.11
AI, 12.10
Filter.zip, 4.20.2
Flexible Minimization, 16.20
template, 10.37.3
Force Auto Bond Typing, 4.20.11
Acetyl Cap, 16.20
ActiveICM, 3.6.1.12
Free Wilson, 10.36.2
Alpha-Helix Stabilization, 16.20
Frequently Asked Questions, 22
Altona-Sundaralingam pseudorotation, 5.5.11
GAMESS, 9.21.16
Atom Single Style, 4.20.3
GINGER, 10.23
GPCR Modeling Example, 21.5.1
GRAPHIC.store Display, 4.20.3
Baell, 10.4.9
NtoC Rainbow, 4.20.4
Beep, 4.20.11
alignment Rainbow, 4.20.4
ballStickRatio, 4.20.1
surfaceDotDensity, 4.20.3
center Follows Clipping, 4.20.3
surfaceDotSize, 4.20.3
clash Style, 4.20.3
surfaceProbeRadius, 4.20.3
clashWidth, 4.20.3
transparency, 4.20.3
clip Grobs, 4.20.3
wire Width, 4.20.1
Skin, 4.20.3
wormRadius, 4.20.9
Static, 4.20.3
xstick Backbone Ratio, 4.20.1
discrete Rainbow, 4.20.4
Hydrogen Ratio, 4.20.1
displayLineLabels, 4.20.7
Style, 4.20.1
displayMapBox, 4.20.3
Vw Ratio, 4.20.1
distance Label Drag, 4.20.1
GROB.arrowRadius, 4.20.3
dnaBallRadius, 4.20.9
atomSphereRadius, 4.20.3
dnaRibbonRatio, 4.20.9
contourSigmaIncrement, 4.20.3
dnaRibbonWidth, 4.20.9
relArrow Size, 4.20.3
dnaRibbonWorm, 4.20.9
relArrowHead, 4.20.3
dnaStickRadius, 4.20.9
GUI.auto Save, 4.20.4
dnaWormRadius, 4.20.9
Interval, 4.20.4
font Scale, 4.20.7
autoSave, 22.2.33
fontColor, 4.20.7
autoSaveInterval, 22.2.33
fontLineSpacing, 4.20.7
enumeration Memory Limit, 4.20.11
grobLineWidth, 4.20.3
max Nof Recent Files, 4.20.11
hbond Ball Period, 4.20.1
Sequence Length, 4.20.4
Style, 4.20.1
splash Screen Delay, 4.20.11
hbondAngleSharpness, 4.20.1
Image, 4.20.11
hbondMinStrength, 4.20.1
table Row Mark Colors, 4.20.4
hbondStyle, 4.20.1
workspace Folder Style, 4.20.4
hbondWidth, 4.20.1
workspaceTabStyle, 4.20.4
hetatmZoom, 4.20.1
GigaScreen, 18.5
hydrogenDisplay, 4.20.1
light, 4.20.3
lightPosition, 4.20.3
HTTP.proxy, 4.20.11
mapLineWidth, 4.20.3
support Cookies, 4.20.11
occupancy Radius Ratio, 4.20.3
user Agent, 4.20.11
occupancyDisplay, 4.20.3
Hbond to selection, 13.1.9.4
quality, 4.20.3
Hbonds, 16.3.4
rainbow Bar Style, 4.20.4
Helicon Peptide, 16.20
resLabelDrag, 4.20.7
How To Guide, 3
resize Keep Scale, 4.20.3
Html, 4.2.7
ribbonRatio, 4.20.9
Http Read Style, 4.20.11
ribbonWidth, 4.20.9
Hydrocarbon Staples, 16.20
ribbonWorm, 4.20.9
Hydrogen.bond, 4.20.5
rocking, 4.20.4
I+4 Staple Position, 16.20
Range, 4.20.4
Staple Position, 16.20
Speed, 4.20.4
ICM Browser How To, 3.1
selectionStyle, 4.20.3
Pro How To, 3.2
site Label Drag, 4.20.7
analysis tools, 5.5.11
Shift, 4.20.7
graphics crash, 22.1.11
siteArrow, 4.20.7
start, 1
stereoMode, 4.20.3
ICM-Pro Tutorial, 16.20
stickRadius, 4.20.1
IMAGE.bondLength2D, 4.20.6
compress, 4.20.6
MolCart, 22.9
gammaCorrection, 4.20.6
generateAlpha, 4.20.6
lineWidth, 4.20.6
lineWidth2D, 4.20.6
MolPSA, 10.11
orientation, 4.20.6
MolScreen, 15
paper Size, 4.20.6
MolSoft ICM-Pro, 16.20
previewResolution, 4.20.6
MolVol, 10.11
previewer, 4.20.6
Molcart, 10.5.3
print, 4.20.6
printerDPI, 4.20.6
Molecular Docking, 16.20
scale, 4.20.6
Dynamics, 14.5
stereoAngle, 4.20.6
Preparation, 16.20
stereoBase, 4.20.6
Movie.fade Nof Frames, 4.20.4
stereoText, 4.20.6
quality, 4.20.4
INCHI, 10.20.3
Auto, 4.20.4
IQR, 17.4.6
NCBI, 22.2.25
ISIS, 22.8.3
NH2 Cap, 16.20
Icm Prompt, 4.20.10
NVIDIA, 22.1
Natural Amino Acids, 16.20
key, 10.3.20
Nof_Atoms, 10.11
Interaction Diagram 2D, 16.3.7
Nof_Chirals, 10.11
Interactive Ligand Editor, 16.20
Nof_HBA, 10.11
Plot, 5.5.11
Nof_HBD, 10.11
Internal Coordinates Table, 9.21.13
Nof_Rings, 10.11
Directory, 4.20.2
Nof_RotBonds, 10.11
JPEG, 3.6.1.15
Non-overlap, 13.1.9.4
KMZ, 3.6.1.7
North conformation, 5.5.11
LCC, 13.5
Nvidia GL failutre, 22.1.11
LigStrain, 16.20
ODA, 22.2.26
Ligand Strain, 16.20
Optimal, 22.2.26
Log Directory, 4.20.2
Output Directory, 4.20.2
chemicals, 10.4.9
Q&A, 14.5
analysis, 10.29
MOL2, 13.1.3
7UWI, 16.20
MOLT, 18.1
Directory, 4.20.2
MOVIE.frame Grab Mode, 4.20.4
Style, 4.20.2
MPO, 10.34
link, 17.1.40
Mac, 22.1.15
Atom Margin, 4.20.10
Field, 3.6.2.13
Sigma Level, 4.20.10
Homology, 3.6.2.15
Markush, 21.6.9
Identity, 3.6.2.14
create, 21.6.7
Sequence, 3.6.2.16
File Size Mb, 4.20.11
convert, 5.1.2
Max_Fused_Rings, 10.11
PFAM, 3.6.1.7
Mnconf, 4.20.10
PLOT.Yratio, 4.20.8
Model, 11.4
color, 4.20.8
draw Tics, 4.20.8
Score, 16.20
font, 4.20.8
Ramachandran Plot, 5.5.9
fontSize, 4.20.8
Real Format, 4.20.10
labelFont, 4.20.8
Reinforce Helix Tool, 16.20
lineWidth, 4.20.8
Relax Geometry Command, 16.20
logo, 4.20.8
Label Shift, 4.20.7
markSize, 4.20.8
Style, 4.20.7
orientation, 4.20.8
Residue Replacement, 16.20
paper Size, 4.20.8
previewer, 4.20.8
rainbowStyle, 4.20.8
seriesLabels, 4.20.8
PLS, 11.1
SCARE, 12.6.4
PROTAC, 12.14
PSA, 10.11.7
SEQUENCE.site Colors, 4.20.4
Peptide Engineering, 16.20
SITE.label Style, 4.20.7
Mode, 16.20
labelOffset, 4.20.7
Modeling, 16.20
wrap Comment, 4.20.7
Stapling, 16.20
SLIDE.ignore Background Color, 4.20.4
Pharmacophore RMSD, 13.1.9.4
Fog, 4.20.4
Projects Directory, 4.20.2
Prosite Dat, 4.20.2
Select Min Grad, 4.20.10
Protein, 22.2.26
Sequence Editing, 16.20
Protein-Peptide Interactions, 16.20
Show Res Code In Selection, 4.20.7
Viewer, 4.20.2
Sidechain Optimization, 16.20
Pseudorotation Interactive Plot, 5.5.11
Pub Chem, 4.16.8
South conformation, 5.5.11
PubMed Reference, 17.1.40
Special Cases, 10.34.1.1
Pubchem, 4.16.8
Strain, 12.4.3.1
SureChEMBL, 4.16.3
Swissprot, 3.6.1.7
and S, 22.5.21
Dat, 4.20.2
R-Group, 10.36.3
link, 17.1.40
R-groups, 16.5.3
Temp Directory, 4.20.2
Terminal Capping, 16.20
RIDE, 18.5
Tools Analysis, 5.5.11
RIDGE, 18.5
Torsion Minimization, 16.20
- Rapid Docking GPU Engine, 13.5
USER.email, 4.20.11
friends, 4.20.11
RMSF, 9.21.18
full Name, 4.20.11
RNA, 4.17
organization, 4.20.11
backbone conformation, 5.5.11
phone, 4.20.11
chain analysis, 5.5.11
Ultra Large Libraries, 18.5
conformation, 5.5.11
Uniprot, 17.1.40
pucker, 5.5.11
VHL, 12.14
structure analysis, 5.5.11
sugar conformation, 5.5.11
preferences, 13.1.4
Van Drie, 10.36.5
gaps, 8.7.11
Change, 13.1.9.4
image, 8.7.2
Water Radius, 4.20.10
profile, 21.4.4
Wilson, 10.36.2
reorder, 8.3.12
Wire Style, 4.20.1
search, 8.7.12
XPDB Directory, 4.20.2
secondary, 21.4.4
Xstick, 3.7.1
a-bright, 3.7.2
selection, 8.7.13
about model, 11.1.3
strength, 8.3.8
profile, 8.3.8
view options, 8.7.10
activeICM, 7.8
color, 8.7.9
comment, 8.7.6
advanced, 7.14
background images, 7.15
cut, 8.3.11
control, 7.13
display title, 8.7.10
activeicmjs, 7.16
editor, 8.7
extract, 8.3.10
gaps, 8.7.11
tutorial, 21.6.11
horizontal scroll, 8.7.10
add database, 10.10.3
image, 8.7.2
new data, 10.3.7
to table, 16.5.7
options, 8.7.10
adding fragment, 10.4.8
rename, 8.7.10
in editor, 10.4.8
reorder, 8.3.12
adjust row height, 22.2.39
ruler, 8.7.10
administration, 10.10.5
save, 8.7.2
advanced alignment selection, 8.7.14
search, 8.7.12
ai, 16.18
decoration, 16.18
sequence offset, 8.7.10
alanine, 12.6.4
table, 8.7.10
album, 6.15.3
view, 8.7.10
alias, 10.4.5
allosteric, 5.6.6
color 2D scaffold, 10.14
alpha, 3.7.2
dna protein, 8.6.4
channel, 4.20.6
multiple, 8.6.5
alphaFold, 4.3
sequence structure, 8.6.3
alphafold, 4.3
two sequences, 8.6.2
ambient, 3.7.2
DNA to protein, 8.6.4
amidinium, 10.15
amino acid, 4.17
acids, 10.4.6
alignment, 8.3.8, 8.6.1, 8.7.7, 8.7.7.1, 8.7.16, 8.8, 10.37.5, 10.37.6, 21.4.4, 22.4.12, 22.6, 22.6.2
annotation tutorial, 21.4.4
stereo faq, 22.1.8
box shade font, 8.7.7
editing, 8.7.1
editor, 8.7
angstrom, 22.4.7
example, 8.3.14
font size, 22.2.1
view, 6.10.7
format, 8.7.11
animations, 7
alignment, 8.7.6
point, 10.35.4
by substructure, 10.13
author, 4.2.4
plot, 17.4.24
close tree, 10.28.5
annotation, 8.7.6
play slide, 7.13
autofit, 12.11
lines, 3.6.3.17
autosave, 22.2.33
lines, 3.6.3.17
available properties, 10.11.1
apf, 5.4.6, 5.8, 10.37.5, 10.37.6, 10.38, 11, 12.7, 13, 13.1.9.5, 13.3, 13.4, 16.3.11, 16.17, 21.8, 21.8.1, 21.8.2, 21.8.3, 21.8.4, 21.8.5, 22.8.12
ave, 17.7.1
flexible template, 10.37.6
pairwise, 10.37.5
axes, 17.4.15
super, 10.37.3
axis, 17.4.11
template, 16.12.3
options, 17.4.10
tools, 10.38
grid, 17.4.10
3DQSAR, 10.38.4
range, 17.4.10
consensus ph4, 10.38.1
title, 17.4.10
pairwise score, 10.38.2
screen, 10.38.3
coloring scale, 22.2.38
tutorial, 21.8
cluster, 21.8.5
consensus, 21.8.2
color shortcut, 22.2.2
score, 21.8.3
images activeicm, 7.15
screen, 21.8.4
image, 6.4.3
superposition, 21.8.1
backup, 3.6.2.11
alignment, 10.37.7
bad, 10.11
apf3Dqsa, 22.8.12
groups, 10.4.9
apo, 13.1.10
ball, 4.20.5
append, 17.1.44
and stick, 3.7.1
table, 17.1.44
balloon, 17.4.26
rows, 3.6.10.7
bases, 10.4.6
applying prediction models, 11.2
basicsel, 4.6.2
file, 12.3.2.2
arrange, 4.14.1
index, 12.3.2.4
window, 4.14.1
loaded icm object, 12.3.2.1
graph, 22.2.8
mol mol2, 12.3.2.3
as2_graph, 4.6.5
molcart, 12.3.2.5
as_graph, 22.2.8
run, 12.3.3
asparagine, 9.21.2
bayesian classifier, 11
assign, 6.1.3
bbb, 10.11.4
2D coordinates, 10.20.2
beep, 22.2.35
helices, 5.6.1
begin docking simulation, 12.3
strands, 5.6.1
best, 10.3.34
bicyclics, 10.4.6
charge, 22.4.21
atomLabelStyle, 4.20.7
properties, 6.3.1
atomic energy circles, 16.3.5
bioinfo align multiple, 8.3.7
two sequences, 8.3.5
score, 10.38.2
links, 8.3.9
secondary structure, 8.3.2
and representative members, 17.7.2
translation, 8.3.3
cereblon, 12.14
bioisoester, 10.9
chain.breaks, 22.2.34
chair, 22.5.20
biological, 5.3.3
change box size, 16.9.1
height of all rows, 17.1.7
bit, 22.1.3
ligand, 16.5.1
residue number, 9.2
search, 4.16.4
row height, 17.1.7
blood brain barrier, 10.11.4
selection, 4.6.7
blue lines, 8.2
speed range, 6.10.7.2
boat, 22.5.20
changing font in alignment editor, 8.7
boltz, 4.3
charge, 3.6.3.21, 5.1.3, 5.1.3.1, 5.1.3.2, 6.8.2, 10.4.3, 10.5.1, 10.7.1, 10.7.2, 10.7.3, 10.38.1, 13.1.9.4, 22.4.1
covalent, 22.4.2
check box, 7.6.6
convert, 22.8.5
bonding, 6.1.8
export excel, 10.2.3
preferences, 4.20.1
save, 10.2
3D, 10.2.5
alignment, 21.4.4
editor, 10.2.4
size, 16.9.1
image, 10.2.6
table, 10.2.2
mode, 10.3.31
super, 10.37
molt, 18.2
view, 10.3.28
stack, 9.21.15
build, 6.10.7.1
chemical, 10, 10.3.28, 10.3.30, 10.3.31, 10.3.34, 10.3.35, 10.4.10, 10.8, 10.10.4, 10.11.3, 10.20.2, 10.24, 10.35.4, 10.35.5, 10.37, 10.37.5, 10.37.6, 17.7.1, 21.6.4, 22.8.4, 22.8.5, 22.8.7, 22.8.8, 22.8.9, 22.8.10
2D qsar, 11.1.2
homology model, 9.1.2
descriptors, 22.8.15
hydrogens, 9.21.5
buried molSurface, 13.1.9.4
draw, 21.6.1
buttons, 7.14
spreadsheet tutorial, 21.6.1
bye, 3.6.1.19
edit buttons, 10.4.11
alpha, 6.1.10
trace, 6.1.10
not starting, 22.1.13
ca-trace, 6.1.10
fingerprint, 15
cache, 7.14.1
fingerprints, 22.8.15
fragments, 10.3.33
properties, 10.11
group, 10.4.5
sequence similarity, 8.7.15
startup, 22.10.2
modifiers, 10.35.2
properties, 21.6.4
carboxylic acid, 10.15
right click, 10.4.3
cartesian, 10.23
cation, 5.2.5
filter, 10.5.2
cavities, 5.5
text, 10.5.4
closed, 5.5.4
sketch, 21.6.1
space, 10.30
cell, 5.3.2
compare, 10.3.22
on ligand, 16.3.13
template, 10.3.2
substituent, 10.9
substructure, 4.2.2
considerations, 12.1.3
chrome, 22.3
display, 10.3.3
cis trans proline, 21.5.2
tables, 17.2
toxicity, 10.11.3
volumes, 13.1.11
2D, 10.7
classes, 10.3.28
3D, 10.7
classification model, 15.5
append, 10.4.13
clear display and planes, 3.6.3.2
selection, 4.6.6
planes, 3.6.3.2
display.fit, 22.8.13
draw, 10.4.1
duplicates, 10.3.21
clipping, 22.2.19
load, 10.1
planes, 6
merge, 10.32
tool, 6.13
new, 10.4.1
tools, 6.13
properties, 10.3.19
clone, 3.6.1.2
read, 10.1
downstream cluster, 10.28.5
project, 16.22
cavities, 5.6.6
structure, 10.4.13
stack, 9.21.18
representative.center, 10.28.2
cns, 10.34
tutorials, 21.6
color, 5.6.3, 6.3.2, 6.3.3, 6.3.4, 6.3.9.4, 6.4, 6.4.1, 6.8.2, 6.8.3, 8.8, 10.3.35, 10.14, 17.1.45, 17.7.4, 22.2.4, 22.2.5, 22.2.16, 22.2.20
convert, 10.20
alignment, 8.7.9
2dto3d, 10.20.1
background, 6.4.2
pca, 10.29
by, 6.4
smiles, 10.20.3
alignment, 8.8
duplicates, 10.33
chemical, 10.3.35
remove.redundant, 10.33
faq, 22.2.20
chemlib.so, 22.1.3
key, 22.2.38
chemspace, 10.5.5
scale, 22.2.38
append, 21.6.4.4
surface by proximity, 6.3.3
build visualize, 21.6.4.1
selection, 6.3.4
compare, 21.6.4.8
table, 10.3.27
delete row, 21.6.4.3
2D sketch, 10.5.6.5
distinguish, 21.6.4.7
export, 21.6.4.5
distance, 6.8.10
project, 21.6.4.6
mesh, 6.3.9.3
select, 21.6.4.2
table, 10.3.27
coloring, 6.4.1
chimeric ligands, 12.9
annotation, 17.1.41
plot, 17.4.6
local database, 3.6.1.6
row width, 17.1.22
statistics, 17.1.32
chem, 10.7.1
visibility order, 17.1.28
smiles to 2D, 22.8.11
color, 17.1.10
local.database, 3.6.1.6
hide, 10.3.8
show, 10.3.8
coordinates, 10.1.3
combinatorial chemistry, 10.35
library, 21.6.8
cell, 17.1.36
combine, 3.6.10.5
chemical, 10.3.25
display style, 4.20.9
loop, 9.5
command, 22.5.16
paste row, 17.1.35
line, 22.2.32
row, 17.1.36
commands, 22.10.1
rows, 17.1.44
common substructure, 10.37.1
selection to table, 17.1.37
compact tree, 10.28.5
chemical, 10.3.16
covalent, 16.10.1
table, 10.3.22
tables, 10.31
compatible, 3.6.1.10
tutorial, 21.9.3
crash, 3.6.2.11
compounds, 22.9.3
creat, 7.6.1
compress, 4.20.6
create, 17.1.1
compressed, 17.1.6
markush, 10.35.3
table view, 17.1.6
new objects, 4.17
conditions, 10.5.2
cross, 22.2.10
gen, 10.23
section, 6.13
configuration error, 22.1.19
cryptic, 5.6.6
crystal, 5.3.2
conformational entropy, 10.27
crystallographic analysis, 5.3
conformations, 22.9.8
biomolecule, 5.3.3
conformers, 10.23
contour map, 5.3.6
convert2grid, 5.3.7
object, 6.12.7
crystallographic cell, 5.3.2
load eds, 5.3.4
maps cell, 5.3.5
pharmacophore, 10.38.1
symmetry packing, 5.3.1
tools, 21.3.8
molecule, 3.6.1.1
cell, 3.6.5
object, 3.6.1.1
neigbor, 5.3.1
neighbors, 3.6.5
surface, 6.3.2
current, 22.2.22
slide, 7.13
chemical, 10.3.24
curves, 17.4.5
2D 3D, 10.7
3D molecular editor, 10.4.16
actions, 17.1.40
from pdb, 5.1.3
fragments, 10.13
rotation, 6.12.2
dislay ligand receptor interaction, 10.6
customized MPO score, 10.34.1
display, 4.5, 4.14.1, 4.20, 5.2.4, 5.2.4.1, 5.2.4.2, 6.8.15, 6.14, 10.25, 12.2.1.3.3, 22.2.4, 22.2.5, 22.2.8, 22.2.10, 22.2.11, 22.2.17, 22.2.21, 22.2.30, 22.2.32, 22.4.10, 22.4.11, 22.4.20, 22.8.4
cut, 17.1.35
chemical, 6.8.11
vertical alignment block, 8.3.11
delete distances, 6.9.4
cyclic peptide, 9.20
dihedral, 6.9.3
cys, 5.6.2
distance restraints, 6.8.14
cysteine reactivity, 5.6.2
distance2, 6.9.1
damaged skin, 22.1.12
angles, 6.9
dash, 22.2.12
formal charge, 6.1.9
gradient, 6.8.17
file format, 13.1.3
hbond, 13.1.9.3
search and alignment, 8.4
databases, 22.9.3
hydrogen, 6.1.7
novo, 12.10
atoms ligand editor, 16.3.3
design, 12.9
mesh, 6.3.5
decompose.library, 21.6.9
meshes, 6.3.8
options, 16.3
decoration, 16.18
planar angle, 6.9.2
default, 4.14
tether, 6.8.13
alignment, 8.7.5
toggle, 6.8.16
all, 3.6.2.2
CPK, 6.1.5
column row, 17.1.38
angle, 6.9.2
label, 6.8.9
chemical, 10.3.3
alignment, 8.7.5
dihedral.angle, 6.9.3
all, 3.6.2.2
angle.label, 6.9.4
electrostatic, 3.6.3.21
column, 17.1.38
energy.gradient, 6.8.17
distance.label, 6.9.4
hydrogen, 6.1.7
label, 6.8.9
polar, 6.1.7
row, 17.1.38
macroshape, 6.3.6
selection, 3.6.2.1
meshes, 6.3.5
tether, 9.21.5
and display.macroshape, 3.7.6
dendrogram, 10.30.1
molecule, 10.3.24
denovo, 12.9
origin, 6.8.12
potential, 3.6.3.21
representations, 3.7.1
deselect, 22.2.7
restraints, 6.8.14
ribbon, 6.1.3
deviation, 22.4.7
skin, 6.1.4
dfa, 15.3.3
status, 22.2.32
dfz, 15.3.2
dialog, 7.6.5
surfaces, 3.7.6
diffuse, 3.7.2
table, 10.3.3
tethers, 6.8.13
angle, 5.5
wire, 6.1.1
dimensional, 22.8.6
xstick, 6.1.2
directories preferences, 4.20.2
directory, 4.20
faq, 22.4.10
disappearing labels, 22.1.12
restraint, 12.5
distances, 3.7.3
navigation, 7.6.7
documents, 6.15.3
bonds, 9.17
dollar, 22.10.3
diverse set, 17.7
donator, 10.4.9
dock, 12, 12.11, 16.10, 16.10.1, 21.9.3, 21.11.1, 21.11.2, 21.12.1, 22.5.3, 22.5.4, 22.5.5, 22.5.7, 22.5.8, 22.5.10, 22.5.11, 22.5.12, 22.5.13, 22.5.14, 22.5.15, 22.5.16, 22.5.21
envelope, 3.7.1
apf, 16.17
surface, 4.20.5
chemical table, 12.3.4
dotted line, 6.1.3
command, 22.5.16
lines, 22.2.34
macrocylce, 22.5.20
double, 10.4.10
start, 12.1
doublet, 10.4.7
table, 16.10
covalent, 16.10.1
dpc, 15.3.4
docked ligand strain, 12.1.10
docking, 5.6.5, 12, 12.1, 12.2, 12.2.1, 12.4.5, 12.6, 12.6.1, 12.6.2, 12.6.3, 12.13, 12.13.1, 12.13.2, 12.13.3, 12.13.4, 12.13.5, 12.13.6, 12.13.8, 12.13.9, 12.13.10, 13.1, 13.1.1, 13.1.2, 13.1.6, 13.2, 13.5, 16.10, 16.10.1, 16.11, 21.9, 21.9.1, 21.9.2, 21.11.3, 21.12, 21.12.2, 22.5, 22.5.1, 22.5.9, 22.5.17, 22.5.18
and drop sequences, 8.6.6
batch index, 12.3.2.4
residue label, 3.6.3.16
covalent, 12.8
draganddrop, 4.12
display, 12.4.6
explicit group, 21.12.2
chemical, 10.4.1
macrocycles, 12.2.1.3
preferences, 12.2.1.3
like, 10.11.4
database scan, 12.2.1.3.2
drugbank, 10.1
display, 12.2.1.3.3
druglikeness, 10.4.9
general, 12.2.1.3.1
dsPocket, 4.9
project, 13.1.5
dual alanine scanning, 12.6.4
table, 13.1.5
easy rotate, 3.6.3.12
results display, 12.4.6
ecfp, 11.3
setup, 22.5.13
start, 12.2.1
2D, 16.5.1
steps, 12.2
add sequence, 10.4.17
template, 12.7
alignment, 8.7.1
templates, 16.12.3
chemical moledit, 10.3.26
tutorials, 21.9
waters, 12.1.8
2D, 16.5.1
background, 22.5.19
editor preferences, 16.2
batch, 12.3.2
multiple substituents, 16.5.2
conformations, 22.5.20
tools, 3.6.2.17
flexible.rings, 22.5.20
menu, 3.6.2
hitlist, 12.4.3
molecular document, 7.6.1
interactive, 12.3.1
molecule, 10.4
preparation, 12.2.1
molt, 18.3
procedure, 12.3
selection, 3.6.2.5
rank, 12.4.3
slide, 7.4.1
table row, 17.1.24
sampling, 22.5.20
molecule, 10.3.26
score, 12.4.3
structure, 10.3.26
stack, 12.4.2
editor, 22.4.12
template, 12.7
editpdbsearch, 3.6.2.12
on binding tutorial, 21.5.3
exclude fragment, 10.5.2
example2, 21.5.3.1
volume, 16.3.11
stability tutorial, 21.5.4
exit, 3.6.1.19
flex, 12.6.1
denisty map, 5.3.5
group, 12.6.3
docking, 12.6.3
contour, 3.6.5
groups, 21.12.2
electrostatic coloring scale, 22.2.38
potential, 3.6.3.21
dock project, 16.21
surface, 6.3
pdb, 4.19
extra windows, 6.2
elegant sketch, 6.10.4
element, 10.4.10
2D, 10.1.1
eln, 19.7
3d coordinates to spreadsheet, 10.1.3
embed browser, 7.11
icb, 3.6.1.5
powerpoint03, 7.8
object icb, 4.18.2
powerpoint07, 7.9
sub alignment, 8.3.10
powerpoint10, 7.10
icb, 3.6.1.5
activeicm, 7.13
pharmacophore, 10.5.6.4
script, 7.13
ISISdraw, 22.8.3
MolCart, 22.9
activeicm, 22.3
microsoft, 7.7
path, 22.3.3
alignment secondary structure, 22.6.2
empty hostid, 22.1.18
apf model, 22.8.12
enamine, 10.5.5
atom charge, 22.4.21
real, 13.5
display, 22.2.17
enantiomer, 22.5.21
autosave, 22.2.33
enantiomers, 12.1.3
backbone, 22.2.13
endocyclic torsion angles, 5.5.11
background color, 22.2.2
job, 22.5.19
circles, 13.1.11
beep, 22.2.35
binding energy, 22.5.2
terms, 9.21.19
blend transition, 22.2.31
ensemble, 12.6.2
breaks, 22.2.34
calculations, 9.21.18
change torsion, 22.4.16
chem table display, 22.8.4
enumerate formal charge states, 10.18
chemical monitor, 22.8.10
reaction, 21.6.10
query2, 22.8.1
enumeration, 10.35.4
cheminformatics, 22.8
eps, 10.2.6
clipping plane, 22.2.11
epsilon, 22.4.15
closest, 22.4.22
eraser, 10.4.11
color carbon, 22.2.4
errno, 22.1.3
skin, 22.2.16
command line display, 22.2.32
evaluate score strain, 16.4
convert chemical from pdb, 22.4.1
exact, 10.31
covalent bond, 22.4.2
excel, 10.2.3
delete, 22.4.9
deselect, 22.2.7
reload dock, 22.5.4
dihedral, 22.2.18
remove salt, 22.8.14
dock charge groups, 22.5.22
select, 22.2.6
probe, 22.5.13
renumber, 22.4.4
racemic, 22.5.21
residue number selection, 22.2.36
repeat, 22.5.5
rmsd, 22.4.7
working directory, 22.5.23
rmsdtips, 22.4.8
docking, 22.5
rocking active ppt, 22.3.1
docktime, 22.5.11
speed, 22.3.2
dollar, 22.10.3
rotate chemical, 22.8.13
download install, 22.1.1
scale display, 22.2.38
druglikeness, 22.8.9
scanScoreExternal, 22.5.17
energy, 22.5.1
scanScoreExternal2, 22.5.18
error admin, 22.1.10
score, 22.5.8
extract ligand, 22.8.8
script, 22.10
flexible dock, 22.5.15
sequence secondary structure, 22.6.1
ring docking, 22.5.20
alignments, 22.6
font size, 22.2.1
smiles, 22.8.11
foreground table, 22.10.4
solvent accessible surface table, 22.4.19
gl failure, 22.1.11
ss, 22.4.17
gui, 22.2
structure, 22.4
guided dock, 22.5.3
superimpose, 22.4.6
hitlist, 22.5.7
surface display, 22.2.37
hydrogen bond acceptors, 22.8.17
thoroughness, 22.5.12
iSee, 22.2.30
transparent ribbon, 22.2.3
icmPocketFinder, 22.5.10
truncate mesh, 22.2.15
insert column, 22.8.7
view stack, 22.9.8
installation, 22.1
weak hydrogen bonds, 22.4.20
interactions, 22.2.12
write pdb, 22.4.3
ligandbox, 22.5.9
faqcontour, 22.2.28
measure distance ring, 22.8.16
faqhbondstrength, 22.2.29
merge, 22.4.5
faqmaps, 22.2.27
modeling, 22.7
faqoda, 22.2.26
molcart 64bit, 22.1.3
faqstereo, 22.1.14
query, 22.9.5
fasta, 8.1.5
sdf, 22.9.4
fbdd, 13.2
text search, 22.9.6
fft, 12.13.1
molecule c, 22.2.5
protein protein docking, 12.13.1
moledit, 22.8.2
file, 3.6.1.3
movie planes, 22.2.19
close, 3.6.1.13
newscript, 22.10.1
compatible, 3.6.1.10
nmr, 22.4.18
export, 3.6.1.12
nvidia error, 22.1.2
high quality image, 6.15.1
origin, 22.2.10
load, 3.6.1.7
plist, 22.1.9
menu, 3.6.1
pmf score, 22.5.6
password, 3.6.1.11
pockets, 22.2.14
preferences, 3.6.1.16
preserve coordinates, 22.8.6
quick image, 3.6.1.14
quad buffer, 22.1.7
icb, 4.11
receptor selection, 22.5.14
recent, 3.6.1.17
gap, 9.4
selection, 4.6.8
general preferences, 4.20.5
filters, 13.1.5
generalselecttools, 4.6.1
find chemical, 10.3.32
getting started, 4
method, 11.3
giga search, 10.5.5
fingerprints, 22.8.15
sized library, 13.5
firefox, 22.3
gigasearch, 10.5.5
ginger, 10.23
five-membered ring conformation, 5.5.11
glutamine proline, 9.21.2
google, 3.6.1.7
objects, 6.3.7
APF superposition to template, 10.37.4
docking, 16.13
gpcr_model, 21.5.1
receptor groups, 16.13
graft loop, 9.5
ring sampling level, 12.2.1.3
graphical, 22.2.4
flood, 9.21.17
tutorial, 21.1
2D3D labels, 21.1.4
preferences, 4.20.7
annotation, 21.1.2
color representation, 21.1.1
form view, 17.1.5
labels, 21.1.3
user interface, 22.2
card, 22.1.2
controls, 6
defects, 22.1.12
effects, 6.10
linking, 16.11
panel, 6.2
screening, 13.2
preferences, 4.20.3
fragments, 10.8
frame, 8.3.3
radical, 10.4.7
wilson regression analysis, 10.36.2
freedomspace, 10.5.5
freeze column, 17.1.30
column, 17.1.46
row, 17.1.31
groupGen, 16.18
frequency, 10.3.35
guanidinium, 10.15
full model, 9.1.3
builder, 9.1.3
menus, 3.6
multiple chain, 9.1.3.1
preferences, 4.20.4
refinement, 9.1.3
tabs, 3.7
scene antialias, 3.6.3.10
screen, 3.6.3.8
halogen, 10.11.2
functional.groups, 10.13
furanose ring conformation, 5.5.11
hba, 13.1.10
fuzzy, 12.7
hbd, 13.1.10
strength, 22.2.29
extract 3D ph4, 10.5.6.4
filter, 10.3.12
health, 5.6.3
find replace, 10.3.13
heatmap, 17.4.7
mark row, 10.3.14
example, 17.4.7.1
markush, 21.6.8
helix, 22.2.20
structure, 21.6.7
help, 2
merge tables, 10.3.23
videos, 2
properties, 10.3.19
hetero, 10.3.28
reactions, 21.6.10
scan, 16.7
reorder, 10.28.3
hidden block format, 8.7.11
sdf, 10.3.9
width, 8.7.11
show hide, 10.3.8
hide, 17.1.39
sort column, 10.3.5
column, 17.1.28
standardize, 10.3.18
high, 3.6.1.15
table hyperlinks, 10.3.15
quality, 3.6.3.11
print, 10.3.11
highlight new data, 10.3.7.1
activeicm, 3.3
his, 22.4.15
create molecular documents, 3.3.3
slides, 3.3.2
tautomer, 22.4.15
getting started, 3.3.1
histogram, 13.1.9.2, 17.4, 17.4.1, 17.4.9, 17.4.11, 17.4.13, 17.4.14, 17.4.15, 17.4.16, 17.4.17, 17.4.18, 17.4.20, 17.4.22
ppt, 3.3.4
bins, 17.4.3
web, 3.3.5
options, 17.4.2
chemical clusering, 10.28.1
bin.size, 17.4.2
icm browser convert display pocket, 3.1.4
bins, 17.4.3
distances angles, 3.1.9
color, 17.4.2
get started, 3.1.1
source, 17.4.2
graphical display, 3.1.2
style, 17.4.2
effects, 3.1.5
title, 17.4.2
images, 3.1.7
historeceptomics, 4.16.9
labels annotation, 3.1.6
pro crystallographic tools, 3.2.6
cluster apf, 13.1.9.5
get started, 3.2.1
columns, 12.4.3.1
graphics, 3.2.2
export, 12.4.4
plots, 3.2.8
sequence analysis, 3.2.7
structure analysis, 3.2.3
introduction, 9.1.1
superimpose, 3.2.5
older versions, 9.1.1.3
surfaces, 3.2.4
hover, 17.4.26
selections, 3.1.3
3D editor, 21.7
superimpose, 3.1.8
add columns, 10.3.4
search, 4.16
cluster center, 10.28.2
hrydrogen.bond, 22.2.29
color 2D by ph4, 10.5.6.5
copy 2D, 10.3.16
html-doc font size, 22.2.1
paste, 10.3.6
decompose, 21.6.9
duplicate chemicals, 10.3.21
atom display, 16.3.3
edit table, 10.3.17
tree, 10.28.4
acceptors, 22.8.17
excel, 10.3.10
donor, 10.38.1
move, 5.2.4.2
index, 22.9.6
induced, 22.5.15
hydrogens, 10.3.28
insert, 7.6.4
remove, 10.3.18
column, 17.1.26
hyrophobic, 10.38.1
table, 17.1.34
row, 17.1.33
script, 7.6.4
icm, 22.3.3
chemist howto chemical search, 3.4.3
installation, 22.1
cluster, 3.4.5
combi library, 3.4.7
fingerprint, 13.1.9.6
ph4, 3.4.4
fingerprints, 13.1.9.6
plots, 3.4.8
lists, 13.1.10
sketch, 3.4.1
restraint, 12.5
spreadsheets, 3.4.2
restraints, 12.5
stereoisomers tautomers, 3.4.6
pro 3D ligand editor, 3.5.1
chem3D, 3.5.2
loaded ligand, 12.3.1.2
chemsuper, 3.5.4
loop, 9.1.4.2
energy, 3.5.3
modeling, 9.1.4
qsar, 3.5.5
table ligand, 12.3.1.1
tutorials, 3.5
modeling, 9.1.4
tutorials, 3.4
interface prediction, 21.10
hanging, 22.1.13
internal hydrogen bonds, 12.1.5
internet explorer, 22.3
script, 17.1.40
interrupt, 6.10.7.3
icm-crash, 22.1.13
animation, 6.10.7.3
icmFastAlignment, 8.4
introduction, 1
invert selection, 17.1.23
icmdb, 19
invisible residue label, 22.1.12
icmjs, 7.16
iqr, 17.4.23
icmpocketfinder, 21.3.7
isee, 7.6.5
id, 17.1.27
isis, 10.4.18
identity, 4.2.3
isostere, 13.4
advanced, 6.15.3
distortion, 22.1.20
javascript, 7.16
preferences, 4.20.6
job, 22.5.19
problem, 22.1.20
join, 10.32
multiple, 3.6.1.7
jpg, 6.15
quality, 3.6.3.11
means, 17.7.1
images, 6.15
keep carboxyls neutral, 12.2.1.3
impose, 12.6.2
kernel regression, 15.3.1
in-a-window, 22.1.7
chemical, 10.4.10
inchi, 10.20.3
keyboard mouse, 6.11
increment, 17.1.27
keystokes in chem-edit, 10.4.10
id, 17.1.27
covalent docking, 16.16
atoms, 6.8.2
mrc, 16.15
color, 6.8.7
preferences, 3.6.2.18
move, 6.8.4
energetics, 10.27
residues, 6.8.3
conformational entropy, 10.27.1
sites, 6.8.6
strain, 10.27.2
variables, 6.8.5
2D, 3.7.3
surface, 16.3.2
receptor contacts, 16.3.12
atom, 6.8.1
display, 5.2
atoms, 6.8.2
interaction, 10.6
color, 6.8.7
strain, 16.3.10
custom, 6.8.8
surface, 5.2.3
tether, 16.12
distance, 6.8.10
drag, 3.6.3.16
ligand-induced RNA conformational changes, 5.5.11
convert, 9.21.1
residue, 6.8.1
residues, 6.8.3
binding.re-dock ligand, 16.9
site, 6.8.1
display, 16.3
sites, 6.8.6
edit, 16.5
variable, 6.8.1
energy, 16.3
hydrogen.bond, 16.3
labeling, 6.8.1
pocket, 16.3
preferences, 16.2
distances, 6.8.10
restraint, 16.12
tab, 3.7.3
surface, 16.3
landscape, 4.20.6
tether, 16.12
large chemical space, 21.6.4
optimization, 21.11.3
font, 22.1.16
pocket, 4.9
size, 22.1.9
receptor.contact, 5.5.3
sdf, 10.1.2
ligand_pocket_interactions, 5.2.1
layer, 6.14
ligedit distance restraint, 16.12.2
layers, 6.14
tab, 3.7.5
tether, 16.12.1
learning, 11
light, 3.7.2
theory, 11.5
tab, 3.7.2
least.squares, 17.4.16
library, 10.35.4
reaction, 21.6.10
license, 22.1.4
lineWidth, 4.20.3
ligand, 5.2.3, 10.6, 10.27, 10.27.1, 10.27.2, 12.1, 12.6, 12.13.6, 12.13.7, 16.3.12, 16.3.13, 16.5.8, 16.10, 16.11, 22.4.5, 22.4.11, 22.5.2, 22.5.9, 22.8.8
link, 8.3.9
aide, 12.10
structure to alignment, 21.4
linker, 12.14
best replace, 16.6
links, 4.6.20
binding, 9.16
linux, 10.10.1
lipinski rule, 10.34
considerations, 12.1.2
list, 4.6.18
lmhostid, 22.1.18
bioisostere, 16.8
nmr model, 4.2.5
receptor maps, 12.2.1.2
pdb hyperlinks, 4.2.6
selection, 4.6
protein structure, 5.1.1
level, 4.6.3
sequence, 8.1
bond, 22.4.2
extract pdb, 8.1.3
from file, 8.1.4
molecule, 3.6.1.1
paste, 8.1.2
object, 3.6.1.1
swissprot, 8.1.1
making molecular slides, 7.1
libraries, 9.21.6
html, 7.6
manual change torsion, 16.5.4
databases, 18
database.browse, 18.2
cel, 5.3.5
edit, 18.3
query, 18.4
mark, 17.1.45
row, 18.3
row, 17.1.45
localpdb, 22.2.24
color, 17.4.14
localseq, 22.2.25
shape, 17.4.13
size, 17.4.13
logD, 10.11.6
docking, 21.11.3
library, 21.6.8
mass, 22.4.22
logarithmic, 17.4.11
logout, 3.6.1.19
analysis, 10.36.6
materials, 3.7.6
analysis, 9.7
max, 17.7.1
design, 9.4
maxColorPotential, 4.20.10
find pdb segments, 9.7
dendrogram, 10.30.1
tutorial, 21.5.2
rgroup decomposition, 10.28.7
preferred residues, 9.6
model, 9.21.9
measure distance, 22.8.16
sample, 9.21.9
to ring, 22.8.16
energy water, 9.21.17
font, 22.1.16
exposed docking, 12.1.7
size, 22.1.16
memory, 10.1.2
machine learning, 21.13
menu, 7.6.5
macrocycles, 9.20
chemistry, 3.6.14
macros, 7.14
docking, 3.6.15
homology, 3.6.13
molmechanics, 3.6.16
alignment, 8.6.1
tools chemical search, 3.6.11
animation, 6.10.7.1
molecular editor, 3.6.12
apf docking sar model, 15.6
windows, 3.6.17
flat, 22.8.13
two sets, 10.32
molecular document, 7.6
mesh, 5.2.2, 5.2.3, 5.3.4, 5.3.6, 5.3.7, 6.3, 6.3.9.1, 6.3.9.2, 6.3.9.4, 6.3.10, 6.3.11, 6.3.12, 6.13.1
molt, 18.1
clip, 6.3.10
options, 6.3.9
representation, 6.3.9.3
membrane, 14.3
save, 6.3.11
restraints, 14.2
options, 6.3.9
run, 14.1
vls, 14.4
surfaces grobs, 6.3
editor, 22.8.2
tab, 3.7.6
graphics, 6
metabolic oxidation, 15.7
matched pairs, 21.6.11
min, 17.7.1
mechanics, 9.21
minimization, 9.18
convert, 9.21.1
cartesian, 9.21.8
design loop, 9.21.10
global, 9.21.8
edit structure, 9.21.5
local, 9.21.8
gamess, 9.21.16
minimum specifications, 1
generate normal mode stack, 9.21.14
his asn, 9.21.2
type, 6.8.2
ic table, 9.21.13
mmp, 21.6.11
impose conformation, 9.21.4
mnSolutions, 4.20.10
minimize, 9.21.8
mmff, 9.21.6
domain interaction, 9.18
regularization, 9.21.3
start, 9.1.1.2
sample loop, 9.21.9
weight, 11.1.4
peptide, 9.21.12
modelers view, 9.1.4.1
protein, 9.21.11
view, 9.1.4.1
terms, 9.21.19
modeling, 9.21.3
view stack, 9.21.15
options, 9.1.1.1
modeling, 9
modeller view, 9.1.4
table, 10.20.2
modification history, 16.5.6
weight, 10.4.9
modify, 9.12
amino acid, 9.12
editor, 10.4
group, 9.11
moledit, 10.4.8
molmechanics, 22.9.8
minimize, 9.21.8
molcart, 10.10, 10.10.1, 10.10.2, 10.10.3, 10.10.4, 10.10.5, 18, 19, 22.1.3, 22.8, 22.8.1, 22.9.3, 22.9.4, 22.9.5, 22.9.6
mmff, 9.21.6
add database, 10.10.3
administration, 10.10.5
custom model panel, 15.4
connect, 22.9.2
load models, 15.1.1
download dbs, 22.9.3
run, 15.1
hostid, 22.9.1
model type, 15.3
installation, 10.10.1
results, 15.2
license, 22.1.4
molskin, 6.3.2
search, 10.10.4
molsynth, 10.11.5
start, 10.10.2
connect, 22.9.2
monitor, 22.8.10
hostid, 22.9.1
monochrome, 10.3.28
license, 22.9.1
montecarlo, 22.9.7
molclart, 22.1.4
animations slides, 7
documents, 21.2
column, 17.1.28
slide, 7.4.2
table, 17.1.1
structure, 6.12
table, 17.1.1
tools, 6
nmr, 22.4.18
rotate, 6.11
model, 4.2.5
slab, 6.11
nnc, 15.3.5
translate, 6.11
nntorsion, 6.12.6.1
z-rotation, 6.11
nof, 10.11.2
zoom, 6.11
chemical, 10.11.2
non-contiguous selection, 4.6.18
montecarlo, 22.9.7
normal modes, 9.21.14
nucleic acid conformation analysis, 5.5.11
geometry, 5.5.11
mpa, 21.6.11
nucleotide analysis, 5.5.11
conformation, 5.5.11
geometry, 5.5.11
mpo, 10.34
puckering, 5.5.11
binary classification, 10.34.2
number of sp3, 10.11.2
custom step function, 10.34.1.2
numbers, 10.3.28
customized, 10.34.1
nvidia, 22.1.2
save, 10.34.1.3
obj, 6.7
special cases, 10.34.1.1
mtl, 6.7
objects, 5.1.2
multi apf super, 10.37.7
in table, 17.3
panel, 6.2
in.table, 17.3
parameter optimization, 10.34
template, 9.1.4.3
shading, 6.3.12
windows, 6.2
effect, 6.10.5
position group scan, 16.7
older version, 3.6.1.10
rec, 12.6.2
online databases, 10.5.5
docking, 16.15
protein, 22.2.5
file, 4.18
password, 4.18.1
with password, 3.6.1.4
residue, 22.4.13
N C, 22.4.14
protein binding, 9.13
optimize, 9.21.2
ligand, 9.16
oracle, 19
peptide, 9.15
orange, 4.6.5
stability, 9.14
selection, 4.6.5
mysql, 19
navigate workspace, 4.6.10
orthosteric, 5.6.6
nearest, 22.4.22
other selection, 4.6.19
outside, 22.5.9
Torsion Profile Neural Network Prediction Engine, 6.12.6.1
new, 8.1
pH, 10.19
icm session, 3.6.1.2
package.activeicm, 7.13
pages, 19.7
pi, 5.2.5
picking, 6
apf score, 10.38
parallelization, 13.1.7
tips, 4.15
password, 10.10.5
chart, 17.4.8
pipi, 5.2.5
pca, 17.5
pka, 10.15
chem gl, 10.7.3
angle, 5.5
iw, 10.7.2
angle, 6.9.2
dormat, 4.19
file, 22.4.3
faq, 22.2.21
html, 4.2.7
plot, 4.20, 4.20.8, 13.1.9.2, 17.4, 17.4.1, 17.4.4, 17.4.9, 17.4.11, 17.4.13, 17.4.14, 17.4.15, 17.4.16, 17.4.17, 17.4.18, 17.4.20, 17.4.21, 17.4.22, 17.4.23
preparation, 21.3.11
R group sar, 10.36.4
axis, 17.4.11
hyperlinks, 4.2.6
color, 17.4.14
convert, 9.21.1
columns, 17.4.6
recent, 3.6.1.18
grid, 17.4.15
pdbsearchfield, 3.6.2.13
header, 17.4.9
pdbsearchhomology, 3.6.2.15
inline, 17.4.22
pdbsearchidentity, 3.6.2.14
logarithmic, 17.4.12
pdbsearcsequence, 3.6.2.16
mark, 17.4.13
mean median iqr, 17.4.23
docking, 12.12
point label, 17.4.19
modeling, 9.20
preferences, 4.20.8
editor, 16.20
groups, 17.4.25
regression, 17.4.16
selection, 17.4.18
ph4, 10.5.6
zoom translate, 17.4.17
draw 2d, 10.5.6.1
axis, 17.4.15
3d, 10.5.6.2
display, 17.4.15
search, 10.5.6.3
grid, 17.4.15
inline, 17.4.22
2D, 21.6.6
logarithmic, 17.4.12
3D, 21.6.5
clone, 10.5.6.2
pmf, 22.5.6
draw2D, 10.5.6.1
draw3D, 10.5.6.2
conservation, 22.4.12
move, 10.5.6.2
properties, 5.8
new, 10.5.6.2
peptide, 4.9
phase angle P, 5.5.11
properties, 4.9
phylogenetic, 8.7.8
pockets, 5.6.6
phylogeny, 8.7.8
point label, 17.4.19
physics-based score, 12.4.3.1
portait, 4.20.6
pi, 5.2.5
post edit ligand, 16.5.8
cation, 5.2.5
screen, 13.1.9
potential mean force, 13.1.4
health, 5.6.3
ppbatch, 12.13.9
model, 9.19
ppepitope, 12.13.7
protein docking, 21.10
ppmaps, 12.13.8
tutorial, 21.10
pprefine, 12.13.11
sculpting, 9.18
ppresults, 12.13.10
sequence, 10.4.17
pproc, 12.13.3
structure, 5
ppsetligand, 12.13.6
analysis, 5.5
ppsetproject, 12.13.4
closed cavities, 5.5.4
ppsetreceptor, 12.13.5
contact areas, 5.5.3
distance, 5.5.6
find related chains, 5.5.1
disulfide, 9.17
finding dihedral angle, 5.5.8
metabolic oxidation, 15.7
planar angle, 5.5.7
predicting bioassays, 11.2
rama export, 5.5.10
compound properties, 11.2
ramachandran plot, 5.5.9
prediction binding, 9.13
rmsd, 5.5.2
surface area, 5.5.5
preferred residues, 9.6
similarity, 5.7
tutorials, 21.3
presentations, 7
analysis, 21.3.4
preserve, 22.8.6
contact area, 21.3.5
press-and-hold to rotate, 10.4.8
convert, 21.3.2
pretty view, 16.3.6
hydrogen bond, 21.3.6
primary aliphatic amines, 10.15
icmpocketfinder, 21.3.7
principal component analysis, 17.5
search, 21.3.1
regression, 11
superimpose, 21.3.3
components, 11.5
superposition, 5.4
select, 5.4.1
alignment, 8.7.4
sites by apf, 5.4.6
plot, 17.4.20
superimpose 3D, 5.4.3
alignment, 8.7.4
grid, 5.4.5
printer.resolution, 4.20.6
multiple proteins, 5.4.4
pro-drug, 10.26
protein-protein, 5.6.5, 12.13, 12.13.1, 12.13.2, 12.13.3, 12.13.4, 12.13.5, 12.13.6, 12.13.8, 12.13.9, 12.13.10, 21.10
docking refinement, 12.13.11
problem, 22.1.14
protein-proteindocking, 12.13.7
with selection, 22.1.12
convert, 9.21.1
prodrug, 10.26
protonated, 22.4.15
state, 12.1.4
close, 3.6.1.13
protonation_ph, 10.19
rename, 3.6.1.9
protonation_ph_charge, 10.19.2
protonation_ph_concentration, 10.19.1
protprot, 12.13
expression, 13.1.9.4
monitor, 10.4.9
protac, 12.14
pseudorotation P, 5.5.11
protect, 7.6.8
analysis, 5.5.11
phase angle, 5.5.11
chain, 9.4
publication quality images, 6.3.2
spreadsheet, 10.3.1
puckering amplitude, 5.5.11
split, 11.1.1
table, 17.1.2
pyramid, 12.1.6
pyramidal, 12.1.6
table, 17
qs hydrogen bond, 5.2.4
reagent, 10.35.5
pdb chem gl, 5.1.3.2
iw, 5.1.3.1
recent files, 3.6.1.17
pdb codes, 3.6.1.18
learn predict, 10.21
receptor, 5.2.2, 5.2.3, 10.6, 12.1, 12.6.2, 12.13.5, 12.13.7, 16.3.12, 21.12.1, 22.5.2, 22.5.14, 22.5.15
predict, 10.22
considerations, 12.1.1
quad buffer stereo, 22.1
flexibility, 16.15
buffer, 22.1.7
pocket, 16.3.1
flexibility, 21.12.2
molt, 18.4
recover, 3.6.2.11
processing, 10.5.3
setup, 10.5.1
quick, 4.15
image, 6.15.2
model multiple chain, 9.1.2.2
loops, 9.1.3
single chain, 9.1.2.1
side chain, 9.9
start move structure, 4.4
sidechains, 9.1.3
read pdb, 4.2
refinement, 12.6.4
representation, 4.7
region, 12.13.7
what is selected, 4.6.4
display.distance, 6.9.1
regul, 9.8
start color, 4.8
quit, 3.6.1.19
covalent geometry, 12.2.1.3
table, 10.35.2
relaxed ligand, 16.3.9
groups, 10.35.2
dock results, 12.4.5
decomposition, 10.28.7
enumeration, 10.28.7
salt, 22.8.14
r-groups, 17.4.25
explixit.hydrogens, 10.12
salt, 10.12
radar, 17.4.6
rename, 17.1.25
column, 17.1.25
project, 3.6.1.9
range, 6.10.7.2
reorder column, 17.1.29
rapid isostere replacement, 13.4
replace chemical, 10.3.32
ratio.selection, 4.20.5
replacement, 16.6
dock ligand, 16.9
group, 16.8
report, 19.3
reactive cysteine, 5.6.2
representation, 3.6.3.19
reactivity, 10.11.3
alternative orientation, 21.3.11
chemical, 10.1
content, 8.3.1
range, 4.6.18
mean square deviation, 5.5.2
chemical, 10.3.34
torsion, 6.12.6.1
when pasting, 10.4.8
mesh, 6.3.9.1
easy, 3.6.3.12
resolution, 4.2.4
speed, 6.10.7.2
rotating fragment in editor, 10.4.8
default, 22.1.9
rotation, 6.12.1
recent backup, 3.6.2.11
rough surface, 22.2.37
restrained docking, 12.5
flag, 17.1.13
restraints, 14.2
results, 12.13.10
mark, 17.1.13
stack, 12.4.2
hide, 10.3.8
retrieve columns, 22.5.24
show, 10.3.8
from original database, 22.5.24
ruler, 6.8.16
review and adjust binding site, 12.2.1.1
molscreen, 15.1.2
rgroup, 10.35.4
rundock, 22.5.16
rxn, 10.4.13
as a mesh object, 22.2.3
safari, 22.3
faq, 22.2.23
sali, 10.36.5
preferences, 4.20.9
bridge, 21.3.6
style, 4.20.9
salts, 10.3.18
breaks, 6.1.3
cylinders, 6.1.3
double bond cis trans, 12.2.1.3
smooth, 6.1.3
worm, 6.1.3
ribbonColorStyle, 4.20.9
racemic centers, 12.2.1.3
ribose pseudorotation, 5.5.11
pucker, 5.5.11
analysis, 10.36
ring, 5.5.11
table, 10.36.3
conformation, 5.5.11
torsion angles, 5.5.11
SMILES, 10.4.15
ride, 13.4
alignment, 8.7.3
gpu benchmark, 13.4.1.2
PDB, 4.19
server setup, 13.4.1.1
pdb, 4.19
setup, 13.4.1
chemical mol, 10.4.13
ridge, 13.5
spreadsheet workspace, 10.2.1
right, 4.13
to chemical spreadsheet, 10.4.14
click, 4.13
docked ligand, 16.19
rigid, 10.37
file, 4.19
substructure superposition to template, 10.37.2
hits, 16.5.7
image plot, 17.4.21
stacking, 5.2.5
ligand receptor complex, 16.19
object, 4.10
pdb, 4.19
project icb, 4.11
speed, 6.10.7.2
sequence, 8.1.5
root, 22.4.7
slide, 7.4
table, 17.1.21
sequence, 4.2.3
spreadsheet, 16.5.7
tautomer, 10.5.3
tree, 17.7.3
uniprot, 4.16.5
sdf, 10.4.14
in.workspace, 3.6.2.4
secondary aliphatic amines, 10.15
object, 4.10
password, 3.6.1.11
picture, 3.6.1.15
a tree branch, 17.7.2
table.view, 17.1.8
all, 4.6.14
saving, 3.6.1.8
amino acid, 4.6.13
project, 3.6.1.8
duplicates, 10.33
scaffold, 10.14
molecule, 4.6.12
hopping, 16.8
neighbors, 4.6.15
graphic, 4.6.16
object, 4.6.11
hits, 12.4.1
group, 16.7
by number, 4.6.18
scan_pockets, 5.8
number, 4.6.18
scarab, 19
tree, 17.7.2
add user, 19.5
atom, 4.6.3
browse export data, 19.4
graphical, 4.6.3
installation, 19.1
object, 4.6.3
new project, 19.6
purple.box, 3.6.3.23
pages, 19.7
residue, 4.6.3
query, 19.3
workspace, 4.6.3
upload data, 19.2
selectall, 3.6.2.3
scare, 12.6.4
selecting.neighbors, 4.6.16
scatter, 13.1.9.2
selection, 4.6.4, 4.6.5, 4.6.21, 6.3.4, 10.4.11, 17.4.18, 17.7.2, 17.7.4, 22.2.4, 22.2.6, 22.2.7, 22.2.8, 22.2.13, 22.2.32, 22.4.9, 22.4.10, 22.4.22, 22.5.14
clear, 3.6.2.7
threshold, 13.1.4
neighbors, 3.6.2.8
alignment, 4.6.19
all, 3.6.2.3
alter, 4.6.7
movie, 6.16.2
atom, 3.6.2.5
basic, 4.6.2
sculpting, 9.18
change, 4.6.7
sdf, 10.2, 10.2.2, 10.2.4, 10.2.5, 10.2.6, 10.3.35, 10.10, 10.10.3, 10.20.1, 16.10, 18.1, 19.2, 21.11.2, 22.9.3, 22.9.4
clear, 3.6.2.7
column, 17.1.23
chembl, 4.16.2
drugbank, 4.16.7
graphical, 4.6.16
filter, 10.5.2
in workspace, 3.6.2.4
level, 3.6.3.3
pdb, 4.2.1
mode, 3.6.3.4
ligand code, 4.16.6
near atoms, 3.6.2.8
pocketome, 4.16.1
pubchem, 4.16.8
object, 4.6.11
surechembl, 4.16.3
other, 4.6.19
tab field, 4.2.4
properties, 3.6.2.5
pdb chemical, 4.2.2
range, 17.1.23
row, 17.1.23
setup, 12.13.6
sphere, 4.6.15
ligand receptor, 16.1
spherical, 3.6.2.8
superposition, 5.4.1
alignment, 21.4.4
shading, 6.3.12
elements, 17.1.23
shadow, 6.10.2
share model, 11.1.5
whole, 4.6.11
sheet, 22.2.20
shell preferences, 4.20.10
selectioninvert, 3.6.2.6
shift, 6.8.3
selections, 4.6
links, 8.3.9
shineStyle, 4.20.3
selectneighbors workspace, 4.6.17
organized network, 10.30
hide column, 17.1.39
sequence, 3.6.4, 4.2.3, 4.16, 4.16.4, 4.16.5, 4.17, 8, 8.1, 8.1.5, 8.2, 8.3, 8.3.7, 8.6.1, 8.6.5, 9.1.2, 10.4.17, 21.3, 21.4, 21.4.4, 22.4.12, 22.6, 22.6.1
side, 10.3.29
analysis, 8.3
by side, 10.3.29
editor, 8.5
error, 22.1.19
identity, 8.7.15
stereo, 3.6.3.6
pattern, 4.2.3
chain refinement, 16.14
reordering, 8.7.8
chains, 9.9
side-by-side, 22.1.19
similarity, 8.7.15
side-chain sampling, 12.13.11
sites, 8.5
side-chains, 12.6.1
structure, 8.3.6
type, 8.3.4
similarity, 10.31
DNA, 8.3.4
length, 22.5.12
amino acid, 8.3.4
simulations, 22.7
nucleotide, 8.3.4
single, 10.4.10
protein, 8.3.4
chain, 9.1.2.1
search, 8.4
singlet, 10.4.7
sites, 5.4.6
size, 5.2.4.1
unique, 8.3.13
sketch accents, 6.10.3
extract, 8.3.13
markush, 10.35.1
unique, 8.3.13
reaction, 12.8.1
server, 13.1.7.2
smiles, 10.4.12
error, 22.1.17
formal charges, 10.15
server, 22.1.17
slice, 6.13
bond type, 9.21.5
charges, 9.21.6
effects, 7.5
chirality, 9.21.5
movie, 6.16.1
file, 7.2
bond, 9.21.5
navigation, 7.3.2
formal charge, 9.21.5
show, 7.3
tether, 9.21.5
blend, 7.5
types, 9.21.6
edit, 7.4.1
setAPFparams, 22.8.12
effect, 7.5
transition, 7.5
ensemble, 9.21.14
representation, 6.1
smiles, 10.20.4
smooth, 6.3.9.3
structure-based, 13
surface, 22.2.37
solid, 6.3.9.3
style, 4.20.5
solvent.accessible.area, 22.4.19
sort hitlist, 13.1.9.1
table, 3.6.10.4
template, 16.12.3
sorting, 13.1.9.1
alerts, 10.13
compounds, 17.7
sugar conformation, 5.5.11
sp3, 10.11.2
pucker analysis, 5.5.11
spec, 3.7.2
puckering, 5.5.11
specifications, 22.1.5
ring puckering, 5.5.11
specs, 1
sulfur, 9.10
faq, 22.1.5
speed, 6.10.7.2
3D, 5.4.3
sphere, 22.4.11
Calpha, 5.4.3
arrange.grid, 5.4.5
split, 10.36.1
backbone, 5.4.3
spreadsheet, 10.20.2
heavy atoms, 5.4.3
square, 22.4.7
multiple, 5.4.4
calculations, 9.21.18
area, 5.5
stacking, 5.2.5
area, 5.5.5
standalone hitlist, 12.4.4
standard table, 17.1
surrounding, 22.4.11
standardize, 10.12
table, 10.12
sxstrace, 22.1.19
start, 10.10.2
symmetric oligomer, 9.1.3
startup, 22.10.2
static, 22.4.8
synthesize, 10.11.5
synthetic feasibility, 10.11.5
bond, 10.4.2
system preferences, 4.20.11
hardware, 3.6.3.7
side-by-side, 3.6.3.6
pdb, 3.7.4
stereohard faq, 22.1.6
table, 4.17, 10.1.3, 10.3.24, 10.3.25, 10.3.28, 10.3.30, 10.3.31, 10.3.34, 10.3.35, 10.20.2, 10.23, 16.10, 17, 17.1.6, 17.1.35, 17.1.40, 17.1.45, 17.4, 17.4.1, 17.4.4, 17.4.9, 17.4.11, 17.4.13, 17.4.14, 17.4.15, 17.4.16, 17.4.17, 17.4.18, 17.4.20, 17.7.1, 22.4.19, 22.8.4, 22.8.5, 22.8.7, 22.8.8
stereoisomer, 10.20.5
alignment, 17.1.12
stereoisomers, 10.25
clone, 17.1.16
stick, 4.20.5
color, 17.1.10
stl, 6.7
column format, 17.1.40
stop, 6.10.7.3
delete, 17.1.17
current view, 3.6.3.19
edit, 17.1.24
faq, 22.2.22
filter, 17.1.43
find, 17.1.9
strip, 22.4.9
replace, 10.3.32
font, 17.1.11
size, 22.2.1
histogram, 17.4.1
landscape, 17.1.18
insert, 17.1.26
mark, 10.3.14
layout, 17.1.5
learning, 17.6
mouse, 17.1.47
mark, 17.1.13
name, 17.1.15
row, 17.1.13
new, 17.1.1
mouse, 17.1.47
options, 17.1.14
navigation, 17.1.4
orientation, 17.1.18
new column, 17.1.26
portrait, 17.1.18
plot, 17.4
print, 17.1.19
read, 17.1.2
rename, 17.1.15
rename, 17.1.15
rightclick, 17.1.14
right click, 17.1.14
row height, 22.2.39
row, 17.1.33
save, 17.1.3
rows, 3.6.10.7
selection, 17.1.3
search, 17.1.9
scale, 17.1.18
select, 17.1.23
scroll, 17.1.4
setup, 17.1.18
sdf, 10.3.9
sort, 17.1.42
select, 17.1.23
split fragments, 10.3.33
setup, 17.1.18
view, 17.1.5
save, 17.1.8
standard, 17.1
zoom translate, 10.3.30
view, 10.3.29
action, 17.1.47
width, 17.1.4
alignment, 17.1.12
append, 17.1.43
clone, 17.1.16
tags, 4.6.21
color, 17.1.10
m, 5.5.11
columns, 10.3.8
tautomers, 10.24
compare, 10.3.22
temperature, 5.6.4
copy, 10.3.6
cursor, 17.1.47
docking, 22.5.3
templates, 10.4.6
display, 22.10.4
terminal, 10.3.28
double.click, 17.1.47
font size, 22.2.1
edit, 10.3.17
search, 10.5.4
find-replace, 10.3.13
texture, 3.7.6
to screen, 17.1.4
font, 17.1.11
foreground, 22.10.4
threshold, 4.20.5
grid lines, 17.1.4
tier, 4.14
hide, 17.1.39
time, 22.5.11
hyperlink, 10.3.15
machine, 22.1.15
insert, 17.1.33
tissue, 4.16.9
join, 3.6.10.5
racemic, 10.20
label, 10.3.14
tools 3D, 3.6.6
append rows, 3.6.10.7
search, 21.6.2
extras, 3.6.9
molecular documents, 21.2
plot function, 3.6.9.1
sequence alignment, 21.4
superimpose, 3.6.8
link, 21.4.2
table, 3.6.10
load sequence, 21.4.1
Learn, 3.6.10.1
sequence conservation, 21.4.3
clustering, 3.6.10.3
tutorials, 21
merge, 3.6.10.5
predict, 3.6.10.2
ubuntu, 22.1.18
tooltip, 17.4.26
ultra large library, 13.5
balloons, 17.4.26
analysis, 10.16
box shade font, 8.7.7.1
undisplay-all, 3.6.3.1
free strain, 10.17
origin, 6.8.12
scan, 9.21.7
toxscore, 10.11.3
redo, 16.5.5
trace, 6.1.10
transition.blend, 22.2.31
unit, 5.3.3
units, 22.5.1
unix, 22.10.2
transparent, 6.3.9.3
unsatisfied hydrogen bonds, 16.3.8
background, 6.15.3
unusual peptide, 4.17
ribbon, 22.2.3
upload, 19.2
surface, 22.2.37
use activeicm, 7.12
branch swapping, 8.7.8
defined groups, 16.5.3
distance, 10.28.3
modifiers, 16.5.3
edit, 10.28.4
user-defined groups, 10.4.5
reorder, 10.28.3
van der waal, 6.8.15
triplet, 10.4.7
trouble shooting, 22.1.11
verbose, 10.23
trouble-shooting, 22.1.12
large sdf files, 10.1.2
truncating a mesh object, 22.2.15
vicinity, 10.23
crash qlock, 22.1.13
tsv, 17.1.21
tut analyze alternative orientations, 21.3.11
animate view, 3.6.3.15
occupancy, 21.3.10
center, 3.6.3.20
symmetry, 21.3.9
color background, 3.6.3.18
multiple receptor, 21.12.1
dock results, 12.4
tut3, 21.5
fog, 3.6.3.5
tut3e, 21.3.12
macroshape, 3.6.3.22
tut5a, 21.9.1
menu, 3.6.3
tut5b, 21.9.2
mesh clip, 6.13.1
tut5c, 21.11.1
perspective, 3.6.3.9
tut5e, 21.11.2
selection level, 3.6.3.3
tutorial 2D pharmacophore, 21.6.6
mode, 3.6.3.4
3D pharmacophore, 21.6.5
shadow, 3.6.3.13
chemical clustering, 21.6.3
sketch accents, 3.6.3.14
tools, 3.6.3
images, 6.15
tree, 17.7.4
pdb, 4.19
undisplay all, 3.6.3.1
image, 3.6.1.15
stach, 9.21.15
object, 4.10
picture, 3.6.1.15
ligand screening, 15
table, 17.1.3
writing a pdb file, 22.4.3
examples, 21.11
ray, 3.6.5
virus, 5.3.3
visualize, 10.30
xls, 10.2.3
apf fields, 16.3.11
xlsx, 10.2.3
chemical space, 10.30
xml, 19.2
ligand strain, 16.3.10
vls, 12.6, 12.6.3, 13, 13.1, 13.1.6, 13.1.7.2, 13.1.9.4, 13.3, 14.4, 21.11.2, 22.5.7, 22.5.8, 22.5.24
xyz, 22.2.10
analysis, 13.1.9.4
youtube, 2
display, 13.1.9.3
command line, 13.1.7.2
τm, 5.5.11
getting started, 13.1.2
histogram scatter plot, 13.1.9.2
introduction, 13.1.1
preferences, 13.1.4
results, 13.1.8
run, 13.1.6
score, 12.1.9
visualization, 13.1.11
results, 13.1.8
volume, 10.4.9
waters, 9.21.17
weak, 22.4.20
web, 21.2
browser, 3.6.1.12
weighted, 17.7.1
width, 17.1.22
window, 4.14
wireBondSeparation, 4.20.1
working directory, 22.5.23
panel, 4.5
selection, 4.6.9
navigation, 4.6.10
alignment, 8.7.3
excel, 10.2.3