To remove top menu, open template index.php file, and remove this block of code:
<!-- BEGIN: MAIN NAVIGATION -->
<div id="ja-mainnavwrap">
<div id="ja-mainnav">
<?php $jamenu->genMenu (0); ?>
</div>
<?php if ($this->countModules('user4')) { ?>
<div id="ja-search">
<jdoc:include type="modules" name="user4" style="raw" />
</div>
<?php } ?>
</div>
<?php if ($hasSubnav) { ?>
<div id="ja-subnav" class="clearfix">
<?php $jamenu->genMenu (1,1); ?>
</div>
<?php } ?>
<!-- END: MAIN NAVIGATION -->
To edit background for left column, you could find and edit this style in template.css:
#ja-col1 {template.css (line 543)
background:#CC0000 none repeat scroll 0% 0%;
color:#626A69;
float:left;
overflow:hidden;
width:20%;
}