/usr/share/doc/garlic-doc/commands/ang.html is in garlic-doc 1.6-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 | <html>
<head>
<title>
ANG, ANGLE
</title>
</head>
<h1 align=center>
ANG, ANGLE
</h1>
<hr size="3">
<font color=#880000>
<b>
NAME
<br>
</b>
</font>
ANG, ANGLE - set angle.
<br><br>
<font color=#880000>
<b>
SYNOPSIS
<br>
</b>
</font>
ANG value
<br>
ANGLE value
<br><br>
<font color=#880000>
<b>
DESCRIPTION
<br>
</b>
</font>
Set the rotation angle between adjacent residues. This angle is stored as an
internal variable and used to draw helical wheel or hydrophobic moment plot.
The value should be specified in degrees. Default value is 100 degrees,
which corresponds to alpha helix rotation angle. To prepare helical wheel or
hydrophobic moment plot you have to make the assumption about the secondary
structure. The assumption is made by setting the rotation angle for adjacent
residues. The table below lists the common structural motifs and the
corresponding angles.
<br><br>
<table border=2 cellspacing=2 cellpading=0>
<td align="center">
STRUCTURAL
<br>
MOTIF
</td>
<td align="center">
RESIDUES
<br>
PER TURN
</td>
<td align="center">
ANGLE
<br>
(DEGREES)
</td>
<tr>
<td align="center">
alpha helix
</td>
<td align="center">
3.6
</td>
<td align="center">
100
</td>
<tr>
<td align="center">
3-10 helix
</td>
<td align="center">
3
</td>
<td align="center">
120
</td>
<tr>
<td align="center">
beta strand
</td>
<td align="center">
2.3
</td>
<td align="center">
160
</td>
</table>
<br>
3-10 helices are usually short, but if you assume that more than three
residues fold into 3-10 helix, modify the angle used to draw the helical wheel.
If you use the realistic angle (120 degrees), some residues will be obscured
(hidden behind the residues which are drawn later). Use 115 or 125 instead of
120 degrees, to avoid overlapping of residues.
<br><br>
<font color=#880000>
<b>
RELATED COMMANDS
<br>
</b>
</font>
WHEEL draws the helical wheel. PLOT draws the hydrophobic moment plot.
<br><br>
<hr size="3">
</html>
|