-
Notifications
You must be signed in to change notification settings - Fork 0
/
index.html
235 lines (201 loc) · 7.38 KB
/
index.html
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
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
<!DOCTYPE HTML>
<html lang="en-US">
<head>
<meta charset="UTF-8">
<title>APBS & PDB2PQR • Molecular solvation software</title>
<meta name="viewport" content="width=device-width,initial-scale=1">
<link rel="alternate" type="application/atom+xml" title="Recent commits to the APBS/PDB2PQR master branch" href="https://github.com/electrostatics/apbs-pdb2pqr/commits/master.atom" />
<link href='http://fonts.googleapis.com/css?family=Lato:100,300,400,700,900,100italic,300italic,400italic,700italic,900italic' rel='stylesheet' type='text/css'>
<link href='http://fonts.googleapis.com/css?family=Arizonia' rel='stylesheet' type='text/css'>
<link rel="stylesheet" href="/css/screen.css" />
<script src="/js/modernizr-2.5.3.min.js"></script>
</head>
<body class="wrap">
<div class="cover">
<header>
<nav class="mobile-nav show-on-mobiles">
<div class="search">
<script>
(function() {
var cx = '000719844917896760794:fmatjfzhyd8';
var gcse = document.createElement('script');
gcse.type = 'text/javascript';
gcse.async = true;
gcse.src = (document.location.protocol == 'https:' ? 'https:' : 'http:') +
'//www.google.com/cse/cse.js?cx=' + cx;
var s = document.getElementsByTagName('script')[0];
s.parentNode.insertBefore(gcse, s);
})();
</script>
<gcse:search></gcse:search>
</div>
<ul>
<li class="current">
<a href="/">Overview</a>
</li>
<li class="">
<a href="/docs/home/">Doc<span class="show-on-mobiles">s</span><span class="hide-on-mobiles">umentation</span></a>
</li>
<li class="">
<a href="/news/">News</a>
</li>
<li class="">
<a href="/examples/home/">Examples</a>
</li>
<li class="">
<!-- TODO: Modeled off of docs/ directory; need to populate -->
<a href="/support/home/">Support</a>
</li>
</ul>
</nav>
<div class="grid">
<div style="margin-top: 25px; text-align: center">
<img class="logo" src="/img/apbslogo.png">
</div>
<nav class="main-nav unit hide-on-mobiles">
<div class="search">
<script>
(function() {
var cx = '000719844917896760794:fmatjfzhyd8';
var gcse = document.createElement('script');
gcse.type = 'text/javascript';
gcse.async = true;
gcse.src = (document.location.protocol == 'https:' ? 'https:' : 'http:') +
'//www.google.com/cse/cse.js?cx=' + cx;
var s = document.getElementsByTagName('script')[0];
s.parentNode.insertBefore(gcse, s);
})();
</script>
<gcse:search></gcse:search>
</div>
<ul>
<li class="current">
<a href="/">Overview</a>
</li>
<li class="">
<a href="/docs/home/">Doc<span class="show-on-mobiles">s</span><span class="hide-on-mobiles">umentation</span></a>
</li>
<li class="">
<a href="/news/">News</a>
</li>
<li class="">
<a href="/examples/home/">Examples</a>
</li>
<li class="">
<!-- TODO: Modeled off of docs/ directory; need to populate -->
<a href="/support/home/">Support</a>
</li>
</ul>
</nav>
</div>
</header>
<!--- include smooth scrolling --->
<!-- HTML5 Shim for IE -->
<!--[if IE]>
<script src="http://html5shiv.googlecode.com/svn/trunk/html5.js"></script>
<![endif]-->
<!-- Javascript -->
<script src='/js/bind-polyfill.js'></script>
<script src='/js/smooth-scroll.js'></script>
<script>
smoothScroll.init({
speed: 1000,
easing: 'easeInOutCubic',
offset: 0,
updateURL: true,
callbackBefore: function ( toggle, anchor ) {},
callbackAfter: function ( toggle, anchor ) {}
});
</script>
<style>div.cover{text-align: center}</style>
<section class="intro">
<div class="grid">
<div class="unit whole center-on-mobiles">
<p class="first" style="color: #fff; font-weight: bold; margin-bottom: 50px;">APBS & PDB2PQR: <br/> Electrostatic and solvation properties from complex molecules.</p>
<a class="get_started_btn" href="/docs/home"><h1>Get Started Now <i style="width: 14px; height: 14px; display: inline-block; background-image: url(img/rightArrow.png); background-repeat: no-repeat; background-size: 9px; margin-top: 5px; float: right"></i></h1></a>
</div>
</div>
</section>
<section class="features">
<div style="padding-top: 10px;" class="grid">
<div class="unit one-third">
<h2>Repair and parameterize molecules</h2>
<p>Use PDB2PQR to add missing atoms as well as assign charge and radius parameters from a variety of force fields.</p>
<a href="/docs/structures-ready/" class="">Preparing molecules →</a>
</div>
<div class="unit one-third">
<h2>Assign titration states</h2>
<p>Use PDB2PKA or PROPKA to determine the titration state of proteins at specific pH values.</p>
<a href="/docs/pdb2pqr-examples/" class="">Assigning titration states →</a>
</div>
<div class="unit one-third">
<h2>Calculation solvation properties</h2>
<p>Solve the Poisson-Boltzmann and related equations to calculate solvation energies and electrostatic properties for analysis and visualization.</p>
<a href="/docs/visualizing-results/" class="">Visualizing molecules →</a>
</div>
<div class="clear"></div>
</div>
</section>
</div>
<section class="quickstart">
<div class="grid">
<div class="unit golden-small center-on-mobiles">
<h4>Looking for the old version?!</h4>
</div>
<div class="unit golden-large">
<div class="shell">
<p class="line"><a style="color: #000; text-decoration: underline" href="https://sites.google.com/a/poissonboltzmann.org/software/">Use the older version</a>.</p>
</div>
</div>
<div class="clear"></div>
</div>
</section>
<section class="free-hosting">
<div class="grid">
<div class="unit one-third">
<img src="img/apbs-vmd.jpg" height="100%" alt="Visualizing APBS output with VMD">
</div>
<div class="unit two-thirds">
<h2 class="center-on-mobiles">Easy visualization</h2>
<p>APBS and PDB2PQR work with a variety of desktop molecular graphics software packages and offer simple visualization capabilities via the web without the need for any additional software.</p>
<a href="/docs/visualizing-results/" class="">Learn more about molecular visualization →</a>
</div>
<div class="clear"></div>
</div>
</section>
</div>
<footer>
<div class="grid">
<div class="unit one-third center-on-mobiles">
<!---<p>This website was created by the APBS/PDB2PQR development team using <a href="http://jekyllrb.com/">Jekyll</a> templates.</p>--->
</div>
<div class="unit two-thirds align-right center-on-mobiles">
<p>Proudly hosted by
<a href="https://github.com">
<img src="/img/footer-logo.png" alt="GitHub • Social coding">
</a>
</p>
</div>
</div>
</footer>
<script type="text/javascript">
var _gaq = _gaq || [];
_gaq.push(['_setAccount', 'UA-11026338-12']);
_gaq.push(['_trackPageview']);
(function() {
var ga = document.createElement('script'); ga.type = 'text/javascript'; ga.async = true;
ga.src = ('https:' == document.location.protocol ? 'https://ssl' : 'http://www') + '.google-analytics.com/ga.js';
var s = document.getElementsByTagName('script')[0]; s.parentNode.insertBefore(ga, s);
})();
</script>
<!-- begin old script
<script>
(function(i,s,o,g,r,a,m){i['GoogleAnalyticsObject']=r;i[r]=i[r]||function(){
(i[r].q=i[r].q||[]).push(arguments)},i[r].l=1*new Date();a=s.createElement(o),
m=s.getElementsByTagName(o)[0];a.async=1;a.src=g;m.parentNode.insertBefore(a,m)
})(window,document,'script','//www.google-analytics.com/analytics.js','ga');
ga('create', 'UA-11026338-1', 'electrostatics.github.io');
ga('send', 'pageview');
</script>-->
</body>
</html>