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50    <h1>Other examples, not yet explored</h1>
51    
52  <h3>Example </h3>  <p>These examples are ones that are worth looking at and exploring. The comparisons were done with Family 1 NOT Family 2. The for and against are just as shown in the final tables, so you generally want a result with some "againsts" to look at. Also, the "Red" column is the number of cells that would be colored red (i.e. wrong).</p>
   
 <p>Polymyxin resistance protein PmrJ, predicted deacetylase</p>  
 <p>A nice small family that you can compare to PFAM. There are two different views. The family centric view shows the whole family. The table that shows the other families that are also represented shows <em>all</em> families that are also related to the proteins in the table.</p>  
   
 <p>On the other hand, the protein centric view comes in from a single protein (e.g. if you have clicked a link from the protein page, and only shows you those other families that are related to this particular protein</p>.  
   
         <ol>  
         <li><a href="../proteinfamilies.cgi?family=fig|PF003364">family centric</a></li>  
         <li><a href="../proteinfamilies.cgi?user=$user&prot=fig|119912.1.peg.2301&equivalence=1">gene centric</a></li>  
         </ol>  
   
   
   
   
   
53    
54    <h2>Histidine Biosynthesis compared to PIR</h2>
55    <table border=1>
56    <tr><th>Genome</th><th>peg</th><th>Family 1</th><th>Family 2</th><th>For</th><th>Against</th><th>Red</th></tr>
57    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.1994&equivalence=1" target="_blank">fig|83333.1.peg.1994</a></td><td>fig|PF000056</td><td>pir|PIRSF000486</td><td>18</td><td>-7</td><td>1</td></tr>
58    <tr><td>Symbiobacterium thermophilum IAM 14863</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|292459.1.peg.2713&equivalence=1" target="_blank">fig|292459.1.peg.2713</a></td><td>fig|PF000056</td><td>pir|PIRSF006650</td><td>66</td><td>0</td><td>0</td></tr>
59    <tr><td>Listeria innocua Clip11262</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272626.1.peg.573&equivalence=1" target="_blank">fig|272626.1.peg.573</a></td><td>fig|PF003447</td><td>pir|PIRSF006650</td><td>10</td><td>0</td><td>0</td></tr>
60    <tr><td>Listeria innocua Clip11262</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272626.1.peg.574&equivalence=1" target="_blank">fig|272626.1.peg.574</a></td><td>fig|PF000991</td><td>pir|PIRSF001549</td><td>19</td><td>-7</td><td>2</td></tr>
61    <tr><td>Thermotoga maritima MSB8</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|243274.1.peg.1033&equivalence=1" target="_blank">fig|243274.1.peg.1033</a></td><td>fig|PF000991</td><td>pir|PIRSF027379</td><td>0</td><td>-17</td><td>1</td></tr>
62    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.2001&equivalence=1" target="_blank">fig|83333.1.peg.2001</a></td><td>fig|PF001505</td><td>pir|PIRSF001258</td><td>108</td><td>-147</td><td>2</td></tr>
63    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.2001&equivalence=1" target="_blank">fig|83333.1.peg.2001</a></td><td>fig|PF002226</td><td>pir|PIRSF001258</td><td>111</td><td>-155</td><td>2</td></tr>
64    <tr><td>Listeria innocua Clip11262</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272626.1.peg.566&equivalence=1" target="_blank">fig|272626.1.peg.566</a></td><td>fig|PF001505</td><td>pir|PIRSF006833</td><td>120</td><td>0</td><td>0</td></tr>
65    <tr><td>Listeria innocua Clip11262</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272626.1.peg.567&equivalence=1" target="_blank">fig|272626.1.peg.567</a></td><td>fig|PF002226</td><td>pir|PIRSF029243</td><td>112</td><td>0</td><td>0</td></tr>
66    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.1999&equivalence=1" target="_blank">fig|83333.1.peg.1999</a></td><td>fig|PF002424</td><td>pir|PIRSF001484</td><td>35</td><td>-5</td><td>3</td></tr>
67    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.2000&equivalence=1" target="_blank">fig|83333.1.peg.2000</a></td><td>fig|PF001996</td><td>pir|PIRSF001454</td><td>15</td><td>0</td><td>0</td></tr>
68    <tr><td>Schizosaccharomyces pombe</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|4896.1.peg.2360&equivalence=1" target="_blank">fig|4896.1.peg.2360</a></td><td>fig|PF001996</td><td>pir|PIRSF036936</td><td>122</td><td>-344</td><td>3</td></tr>
69    <tr><td>Schizosaccharomyces pombe</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|4896.1.peg.2360&equivalence=1" target="_blank">fig|4896.1.peg.2360</a></td><td>fig|PF002743</td><td>pir|PIRSF036936</td><td>241</td><td>-339</td><td>2</td></tr>
70    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.1998&equivalence=1" target="_blank">fig|83333.1.peg.1998</a></td><td>fig|PF002743</td><td>pir|PIRSF000495</td><td>7</td><td>-2</td><td>1</td></tr>
71    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.1997&equivalence=1" target="_blank">fig|83333.1.peg.1997</a></td><td>fig|PF001687</td><td>pir|PIRSF001410</td><td>27</td><td>-81</td><td>2</td></tr>
72    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.1997&equivalence=1" target="_blank">fig|83333.1.peg.1997</a></td><td>fig|PF003299</td><td>pir|PIRSF001410</td><td>290</td><td>-156</td><td>2</td></tr>
73    <tr><td>Listeria innocua Clip11262</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272626.1.peg.571&equivalence=1" target="_blank">fig|272626.1.peg.571</a></td><td>fig|PF003299</td><td>pir|PIRSF001409</td><td>115</td><td>-3</td><td>3</td></tr>
74    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.1996&equivalence=1" target="_blank">fig|83333.1.peg.1996</a></td><td>fig|PF000244</td><td>pir|PIRSF000518</td><td>316</td><td>-5</td><td>2</td></tr>
75    <tr><td>Listeria innocua Clip11262</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272626.1.peg.2026&equivalence=1" target="_blank">fig|272626.1.peg.2026</a></td><td>fig|PF000244</td><td>pir|PIRSF006455</td><td>327</td><td>-3</td><td>1</td></tr>
76    <tr><td>Lactococcus lactis subsp. lactis Il1403</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272623.1.peg.1241&equivalence=1" target="_blank">fig|272623.1.peg.1241</a></td><td>fig|PF000244</td><td>pir|PIRSF005473</td><td>374</td><td>-5</td><td>2</td></tr>
77    <tr><td>Listeria innocua Clip11262</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272626.1.peg.575&equivalence=1" target="_blank">fig|272626.1.peg.575</a></td><td>fig|PF001687</td><td>pir|PIRSF019058</td><td>19</td><td>-35</td><td>3</td></tr>
78    <tr><td>Pseudomonas aeruginosa PAO1</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|208964.1.peg.6&equivalence=1" target="_blank">fig|208964.1.peg.6</a></td><td>fig|PF001687</td><td>pir|PIRSF004682</td><td>2</td><td>-69</td><td>3</td></tr>
79    <tr><td>Schizosaccharomyces pombe</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|4896.1.peg.210&equivalence=1" target="_blank">fig|4896.1.peg.210</a></td><td>fig|PF001687</td><td>pir|PIRSF017203</td><td>38</td><td>-37</td><td>4</td></tr>
80    <tr><td>Corynebacterium efficiens YS-314</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|196164.1.peg.1995&equivalence=1" target="_blank">fig|196164.1.peg.1995</a></td><td>fig|PF003597</td><td>pir|PIRSF004949</td><td>8</td><td>0</td><td>0</td></tr>
81    <tr><td>Corynebacterium efficiens YS-314</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|196164.1.peg.809&equivalence=1" target="_blank">fig|196164.1.peg.809</a></td><td>fig|PF003597</td><td>pir|PIRSF500194</td><td>20</td><td>0</td><td>0</td></tr>
82    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.1995&equivalence=1" target="_blank">fig|83333.1.peg.1995</a></td><td>fig|PF002941</td><td>pir|PIRSF000099</td><td>11</td><td>0</td><td>0</td></tr>
83    </table>
84    
85    <h2>Histidine Biosynthesis compared to PFAM</h2>
86    
87    <table border=1>
88    <tr><th>Genome</th><th>peg</th><th>Family 1</th><th>Family 2</th><th>For</th><th>Against</th><th>Red</th></tr>
89    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.1994&equivalence=1" target="_blank">fig|83333.1.peg.1994</a></td><td>fig|PF000056</td><td>pfam|PF08029.1</td><td>17</td><td>-2</td><td>1</td></tr>
90    <tr><td>Listeria innocua Clip11262</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272626.1.peg.573&equivalence=1" target="_blank">fig|272626.1.peg.573</a></td><td>fig|PF003447</td><td>pfam|PF01634.8</td><td>2</td><td>0</td><td>0</td></tr>
91    <tr><td>Listeria innocua Clip11262</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272626.1.peg.574&equivalence=1" target="_blank">fig|272626.1.peg.574</a></td><td>fig|PF000991</td><td>pfam|PF00587.14</td><td>4</td><td>-4</td><td>2</td></tr>
92    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.2001&equivalence=1" target="_blank">fig|83333.1.peg.2001</a></td><td>fig|PF001505</td><td>pfam|PF01502.8</td><td>93</td><td>-106</td><td>2</td></tr>
93    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.2001&equivalence=1" target="_blank">fig|83333.1.peg.2001</a></td><td>fig|PF001505</td><td>pfam|PF01503.7</td><td>39</td><td>-35</td><td>1</td></tr>
94    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.2001&equivalence=1" target="_blank">fig|83333.1.peg.2001</a></td><td>fig|PF002226</td><td>pfam|PF01502.8</td><td>39</td><td>-38</td><td>1</td></tr>
95    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.2001&equivalence=1" target="_blank">fig|83333.1.peg.2001</a></td><td>fig|PF002226</td><td>pfam|PF01503.7</td><td>96</td><td>-117</td><td>2</td></tr>
96    <tr><td>Neurospora crassa</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|5141.1.peg.8508&equivalence=1" target="_blank">fig|5141.1.peg.8508</a></td><td>fig|PF001505</td><td>pfam|PF00815.9</td><td>283</td><td>-347</td><td>3</td></tr>
97    <tr><td>Neurospora crassa</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|5141.1.peg.8508&equivalence=1" target="_blank">fig|5141.1.peg.8508</a></td><td>fig|PF002226</td><td>pfam|PF00815.9</td><td>286</td><td>-360</td><td>3</td></tr>
98    <tr><td>Neurospora crassa</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|5141.1.peg.8508&equivalence=1" target="_blank">fig|5141.1.peg.8508</a></td><td>fig|PF002941</td><td>pfam|PF00815.9</td><td>2</td><td>-194</td><td>2</td></tr>
99    <tr><td>Neurospora crassa</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|5141.1.peg.8508&equivalence=1" target="_blank">fig|5141.1.peg.8508</a></td><td>fig|PF002941</td><td>pfam|PF01502.8</td><td>122</td><td>-578</td><td>3</td></tr>
100    <tr><td>Neurospora crassa</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|5141.1.peg.8508&equivalence=1" target="_blank">fig|5141.1.peg.8508</a></td><td>fig|PF002941</td><td>pfam|PF01503.7</td><td>122</td><td>-578</td><td>3</td></tr>
101    <tr><td>Schizosaccharomyces pombe</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|4896.1.peg.2360&equivalence=1" target="_blank">fig|4896.1.peg.2360</a></td><td>fig|PF001996</td><td>pfam|PF00117.15</td><td>122</td><td>-336</td><td>3</td></tr>
102    <tr><td>Schizosaccharomyces pombe</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|4896.1.peg.2360&equivalence=1" target="_blank">fig|4896.1.peg.2360</a></td><td>fig|PF002743</td><td>pfam|PF00117.15</td><td>1</td><td>-78</td><td>1</td></tr>
103    <tr><td>Schizosaccharomyces pombe</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|4896.1.peg.2360&equivalence=1" target="_blank">fig|4896.1.peg.2360</a></td><td>fig|PF002743</td><td>pfam|PF00977.10</td><td>241</td><td>-340</td><td>2</td></tr>
104    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.1997&equivalence=1" target="_blank">fig|83333.1.peg.1997</a></td><td>fig|PF001687</td><td>pfam|PF00475.8</td><td>27</td><td>-70</td><td>2</td></tr>
105    <tr><td>Escherichia coli K12</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|83333.1.peg.1997&equivalence=1" target="_blank">fig|83333.1.peg.1997</a></td><td>fig|PF003299</td><td>pfam|PF00475.8</td><td>27</td><td>-59</td><td>1</td></tr>
106    <tr><td>Nostoc sp. PCC 7120</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|103690.1.peg.384&equivalence=1" target="_blank">fig|103690.1.peg.384</a></td><td>fig|PF003299</td><td>pfam|PF00702.13</td><td>0</td><td>-62</td><td>2</td></tr>
107    <tr><td>Photorhabdus luminescens subsp. laumondii TTO1</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|243265.1.peg.1484&equivalence=1" target="_blank">fig|243265.1.peg.1484</a></td><td>fig|PF000244</td><td>pfam|PF00815.9</td><td>264</td><td>-399</td><td>3</td></tr>
108    <tr><td>Photorhabdus luminescens subsp. laumondii TTO1</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|243265.1.peg.1484&equivalence=1" target="_blank">fig|243265.1.peg.1484</a></td><td>fig|PF002941</td><td>pfam|PF00155.9</td><td>239</td><td>-347</td><td>2</td></tr>
109    <tr><td>Listeria innocua Clip11262</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272626.1.peg.575&equivalence=1" target="_blank">fig|272626.1.peg.575</a></td><td>fig|PF001687</td><td>pfam|PF02811.7</td><td>0</td><td>-35</td><td>3</td></tr>
110    </table>
111    
112    <h2>Leucine Degradation compared to PIR</h2>
113    
114    <table border=1>
115    <tr><th>Genome</th><th>peg</th><th>Family 1</th><th>Family 2</th><th>For</th><th>Against</th><th>Red</th></tr>
116    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.3860&equivalence=1" target="_blank">fig|224308.1.peg.3860</a></td><td>fig|PF002066</td><td>pir|PIRSF006468</td><td>188</td><td>-4</td><td>1</td></tr>
117    <tr><td>Bacillus anthracis str. Ames</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|198094.1.peg.1301&equivalence=1" target="_blank">fig|198094.1.peg.1301</a></td><td>fig|PF002066</td><td>pir|PIRSF000523</td><td>123</td><td>0</td><td>0</td></tr>
118    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.2409&equivalence=1" target="_blank">fig|224308.1.peg.2409</a></td><td>fig|PF001207</td><td>pir|PIRSF000152</td><td>26</td><td>-14</td><td>1</td></tr>
119    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.2409&equivalence=1" target="_blank">fig|224308.1.peg.2409</a></td><td>fig|PF002751</td><td>pir|PIRSF000152</td><td>23</td><td>-3</td><td>1</td></tr>
120    <tr><td>Bacillus halodurans C-125</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272558.1.peg.213&equivalence=1" target="_blank">fig|272558.1.peg.213</a></td><td>fig|PF001158</td><td>pir|PIRSF000152</td><td>31</td><td>-147</td><td>5</td></tr>
121    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.2408&equivalence=1" target="_blank">fig|224308.1.peg.2408</a></td><td>fig|PF000067</td><td>pir|PIRSF000155</td><td>37</td><td>-2</td><td>1</td></tr>
122    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.2408&equivalence=1" target="_blank">fig|224308.1.peg.2408</a></td><td>fig|PF001487</td><td>pir|PIRSF000155</td><td>41</td><td>-29</td><td>1</td></tr>
123    <tr><td>Rhodopseudomonas palustris CGA009</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|258594.1.peg.2850&equivalence=1" target="_blank">fig|258594.1.peg.2850</a></td><td>fig|PF000067</td><td>pir|PIRSF036563</td><td>149</td><td>-110</td><td>3</td></tr>
124    <tr><td>Rhodopseudomonas palustris CGA009</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|258594.1.peg.2850&equivalence=1" target="_blank">fig|258594.1.peg.2850</a></td><td>fig|PF001487</td><td>pir|PIRSF036563</td><td>195</td><td>-236</td><td>3</td></tr>
125    <tr><td>Rhodopseudomonas palustris CGA009</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|258594.1.peg.2850&equivalence=1" target="_blank">fig|258594.1.peg.2850</a></td><td>fig|PF002666</td><td>pir|PIRSF036563</td><td>137</td><td>-279</td><td>3</td></tr>
126    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.2407&equivalence=1" target="_blank">fig|224308.1.peg.2407</a></td><td>fig|PF001388</td><td>pir|PIRSF000432</td><td>31</td><td>-1</td><td>1</td></tr>
127    <tr><td>Shewanella oneidensis MR-1</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|211586.1.peg.2120&equivalence=1" target="_blank">fig|211586.1.peg.2120</a></td><td>fig|PF001388</td><td>pir|PIRSF000433</td><td>132</td><td>0</td><td>0</td></tr>
128    <tr><td>Streptomyces avermitilis MA-4680</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|227882.1.peg.4367&equivalence=1" target="_blank">fig|227882.1.peg.4367</a></td><td>fig|PF001864</td><td>pir|PIRSF000432</td><td>197</td><td>-176</td><td>4</td></tr>
129    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1463&equivalence=1" target="_blank">fig|224308.1.peg.1463</a></td><td>fig|PF003391</td><td>pir|PIRSF000210</td><td>164</td><td>-10</td><td>4</td></tr>
130    <tr><td>Brucella melitensis 16M</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224914.1.peg.145&equivalence=1" target="_blank">fig|224914.1.peg.145</a></td><td>fig|PF000100</td><td>pir|PIRSF000210</td><td>22</td><td>0</td><td>0</td></tr>
131    <tr><td>Bordetella bronchiseptica RB50</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|257310.1.peg.2524&equivalence=1" target="_blank">fig|257310.1.peg.2524</a></td><td>fig|PF003391</td><td>pir|PIRSF000212</td><td>769</td><td>-263</td><td>4</td></tr>
132    <tr><td>Ralstonia metallidurans CH34</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|119219.1.peg.4104&equivalence=1" target="_blank">fig|119219.1.peg.4104</a></td><td>fig|PF003391</td><td>pir|PIRSF000350</td><td>840</td><td>-288</td><td>4</td></tr>
133    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1830&equivalence=1" target="_blank">fig|224308.1.peg.1830</a></td><td>fig|PF000094</td><td>pir|PIRSF000182</td><td>518</td><td>-427</td><td>5</td></tr>
134    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1830&equivalence=1" target="_blank">fig|224308.1.peg.1830</a></td><td>fig|PF002044</td><td>pir|PIRSF000182</td><td>183</td><td>-27</td><td>2</td></tr>
135    <tr><td>Brucella melitensis 16M</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224914.1.peg.1924&equivalence=1" target="_blank">fig|224914.1.peg.1924</a></td><td>fig|PF001705</td><td>pir|PIRSF001591</td><td>102</td><td>0</td><td>0</td></tr>
136    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1824&equivalence=1" target="_blank">fig|224308.1.peg.1824</a></td><td>fig|PF003427</td><td>pir|PIRSF001593</td><td>36</td><td>0</td><td>0</td></tr>
137    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1825&equivalence=1" target="_blank">fig|224308.1.peg.1825</a></td><td>fig|PF000095</td><td>pir|PIRSF001406</td><td>5</td><td>-1</td><td>0</td></tr>
138    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1826&equivalence=1" target="_blank">fig|224308.1.peg.1826</a></td><td>fig|PF000193</td><td>pir|PIRSF001367</td><td>13</td><td>-7</td><td>3</td></tr>
139    <tr><td>Mycobacterium avium subsp. paratuberculosis str. k10</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|262316.1.peg.2310&equivalence=1" target="_blank">fig|262316.1.peg.2310</a></td><td>fig|PF000193</td><td>pir|PIRSF015582</td><td>0</td><td>-42</td><td>1</td></tr>
140    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1829&equivalence=1" target="_blank">fig|224308.1.peg.1829</a></td><td>fig|PF000104</td><td>pir|PIRSF001552</td><td>291</td><td>-584</td><td>3</td></tr>
141    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1829&equivalence=1" target="_blank">fig|224308.1.peg.1829</a></td><td>fig|PF001188</td><td>pir|PIRSF001552</td><td>29</td><td>-41</td><td>3</td></tr>
142    <tr><td>Bacillus halodurans C-125</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272558.1.peg.1137&equivalence=1" target="_blank">fig|272558.1.peg.1137</a></td><td>fig|PF001188</td><td>pir|PIRSF001550</td><td>30</td><td>-11</td><td>2</td></tr>
143    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.3904&equivalence=1" target="_blank">fig|224308.1.peg.3904</a></td><td>fig|PF000160</td><td>pir|PIRSF000859</td><td>15</td><td>-13</td><td>1</td></tr>
144    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.3904&equivalence=1" target="_blank">fig|224308.1.peg.3904</a></td><td>fig|PF000359</td><td>pir|PIRSF000859</td><td>13</td><td>-25</td><td>1</td></tr>
145    <tr><td>Mycobacterium avium subsp. paratuberculosis str. k10</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|262316.1.peg.3861&equivalence=1" target="_blank">fig|262316.1.peg.3861</a></td><td>fig|PF000359</td><td>pir|PIRSF000858</td><td>28</td><td>-99</td><td>2</td></tr>
146    <tr><td>Mycobacterium avium subsp. paratuberculosis str. k10</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|262316.1.peg.3861&equivalence=1" target="_blank">fig|262316.1.peg.3861</a></td><td>fig|PF000530</td><td>pir|PIRSF000858</td><td>57</td><td>-74</td><td>2</td></tr>
147    <tr><td>Mycobacterium avium subsp. paratuberculosis str. k10</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|262316.1.peg.3861&equivalence=1" target="_blank">fig|262316.1.peg.3861</a></td><td>fig|PF003527</td><td>pir|PIRSF000858</td><td>57</td><td>-64</td><td>2</td></tr>
148    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.3903&equivalence=1" target="_blank">fig|224308.1.peg.3903</a></td><td>fig|PF000530</td><td>pir|PIRSF012663</td><td>16</td><td>-21</td><td>1</td></tr>
149    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.3903&equivalence=1" target="_blank">fig|224308.1.peg.3903</a></td><td>fig|PF003527</td><td>pir|PIRSF012663</td><td>13</td><td>-7</td><td>1</td></tr>
150    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1717&equivalence=1" target="_blank">fig|224308.1.peg.1717</a></td><td>fig|PF001265</td><td>pir|PIRSF500082</td><td>6</td><td>0</td><td>0</td></tr>
151    </table>
152    
153    <h2>Leucine Degradation compared to PFAM</h2>
154    
155    <table border=1>
156    <tr><th>Genome</th><th>peg</th><th>Family 1</th><th>Family 2</th><th>For</th><th>Against</th><th>Red</th></tr>
157    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.3860&equivalence=1" target="_blank">fig|224308.1.peg.3860</a></td><td>fig|PF002066</td><td>pfam|PF01063.8</td><td>3</td><td>-1</td><td>0</td></tr>
158    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.2409&equivalence=1" target="_blank">fig|224308.1.peg.2409</a></td><td>fig|PF001207</td><td>pfam|PF00676.9</td><td>16</td><td>-11</td><td>1</td></tr>
159    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.2409&equivalence=1" target="_blank">fig|224308.1.peg.2409</a></td><td>fig|PF002751</td><td>pfam|PF00676.9</td><td>16</td><td>-3</td><td>1</td></tr>
160    <tr><td>Bacillus halodurans C-125</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|272558.1.peg.213&equivalence=1" target="_blank">fig|272558.1.peg.213</a></td><td>fig|PF001158</td><td>pfam|PF00676.9</td><td>11</td><td>-122</td><td>5</td></tr>
161    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.2408&equivalence=1" target="_blank">fig|224308.1.peg.2408</a></td><td>fig|PF000067</td><td>pfam|PF02779.12</td><td>17</td><td>-1</td><td>1</td></tr>
162    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.2408&equivalence=1" target="_blank">fig|224308.1.peg.2408</a></td><td>fig|PF000067</td><td>pfam|PF02780.9</td><td>17</td><td>-1</td><td>1</td></tr>
163    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.2408&equivalence=1" target="_blank">fig|224308.1.peg.2408</a></td><td>fig|PF001487</td><td>pfam|PF02779.12</td><td>17</td><td>-26</td><td>1</td></tr>
164    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.2408&equivalence=1" target="_blank">fig|224308.1.peg.2408</a></td><td>fig|PF001487</td><td>pfam|PF02780.9</td><td>17</td><td>-26</td><td>1</td></tr>
165    <tr><td>Brucella melitensis 16M</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224914.1.peg.2120&equivalence=1" target="_blank">fig|224914.1.peg.2120</a></td><td>fig|PF000067</td><td>pfam|PF00676.9</td><td>145</td><td>-3</td><td>1</td></tr>
166    <tr><td>Brucella melitensis 16M</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224914.1.peg.2120&equivalence=1" target="_blank">fig|224914.1.peg.2120</a></td><td>fig|PF001487</td><td>pfam|PF00676.9</td><td>190</td><td>-56</td><td>1</td></tr>
167    <tr><td>Rhodopseudomonas palustris CGA009</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|258594.1.peg.2850&equivalence=1" target="_blank">fig|258594.1.peg.2850</a></td><td>fig|PF000067</td><td>pfam|PF00364.11</td><td>149</td><td>-106</td><td>3</td></tr>
168    <tr><td>Rhodopseudomonas palustris CGA009</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|258594.1.peg.2850&equivalence=1" target="_blank">fig|258594.1.peg.2850</a></td><td>fig|PF001487</td><td>pfam|PF00364.11</td><td>195</td><td>-233</td><td>3</td></tr>
169    <tr><td>Rhodopseudomonas palustris CGA009</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|258594.1.peg.2850&equivalence=1" target="_blank">fig|258594.1.peg.2850</a></td><td>fig|PF002666</td><td>pfam|PF00364.11</td><td>137</td><td>-279</td><td>3</td></tr>
170    <tr><td>Rhodopseudomonas palustris CGA009</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|258594.1.peg.2850&equivalence=1" target="_blank">fig|258594.1.peg.2850</a></td><td>fig|PF002666</td><td>pfam|PF02779.12</td><td>1</td><td>-67</td><td>2</td></tr>
171    <tr><td>Rhodopseudomonas palustris CGA009</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|258594.1.peg.2850&equivalence=1" target="_blank">fig|258594.1.peg.2850</a></td><td>fig|PF002666</td><td>pfam|PF02780.9</td><td>1</td><td>-67</td><td>2</td></tr>
172    <tr><td>Coxiella burnetii RSA 493</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|227377.1.peg.612&equivalence=1" target="_blank">fig|227377.1.peg.612</a></td><td>fig|PF001864</td><td>pfam|PF00198.12</td><td>9</td><td>-94</td><td>1</td></tr>
173    <tr><td>Coxiella burnetii RSA 493</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|227377.1.peg.612&equivalence=1" target="_blank">fig|227377.1.peg.612</a></td><td>fig|PF001864</td><td>pfam|PF00364.11</td><td>11</td><td>-98</td><td>2</td></tr>
174    <tr><td>Coxiella burnetii RSA 493</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|227377.1.peg.612&equivalence=1" target="_blank">fig|227377.1.peg.612</a></td><td>fig|PF001864</td><td>pfam|PF02817.6</td><td>11</td><td>-99</td><td>2</td></tr>
175    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1463&equivalence=1" target="_blank">fig|224308.1.peg.1463</a></td><td>fig|PF003391</td><td>pfam|PF00070.16</td><td>4</td><td>-3</td><td>2</td></tr>
176    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1463&equivalence=1" target="_blank">fig|224308.1.peg.1463</a></td><td>fig|PF003391</td><td>pfam|PF07992.2</td><td>4</td><td>-3</td><td>2</td></tr>
177    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1463&equivalence=1" target="_blank">fig|224308.1.peg.1463</a></td><td>fig|PF003391</td><td>pfam|PF02852.11</td><td>19</td><td>-2</td><td>1</td></tr>
178    <tr><td>Brucella melitensis 16M</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224914.1.peg.145&equivalence=1" target="_blank">fig|224914.1.peg.145</a></td><td>fig|PF000100</td><td>pfam|PF00070.16</td><td>22</td><td>0</td><td>0</td></tr>
179    <tr><td>Brucella melitensis 16M</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224914.1.peg.145&equivalence=1" target="_blank">fig|224914.1.peg.145</a></td><td>fig|PF000100</td><td>pfam|PF07992.2</td><td>22</td><td>0</td><td>0</td></tr>
180    <tr><td>Brucella melitensis 16M</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224914.1.peg.145&equivalence=1" target="_blank">fig|224914.1.peg.145</a></td><td>fig|PF000100</td><td>pfam|PF02852.11</td><td>22</td><td>0</td><td>0</td></tr>
181    <tr><td>Bordetella bronchiseptica RB50</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|257310.1.peg.2524&equivalence=1" target="_blank">fig|257310.1.peg.2524</a></td><td>fig|PF003391</td><td>pfam|PF00364.11</td><td>765</td><td>-255</td><td>4</td></tr>
182    <tr><td>Ralstonia metallidurans CH34</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|119219.1.peg.4104&equivalence=1" target="_blank">fig|119219.1.peg.4104</a></td><td>fig|PF003391</td><td>pfam|PF00403.14</td><td>840</td><td>-281</td><td>4</td></tr>
183    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1830&equivalence=1" target="_blank">fig|224308.1.peg.1830</a></td><td>fig|PF000094</td><td>pfam|PF00441.13</td><td>37</td><td>-219</td><td>4</td></tr>
184    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1830&equivalence=1" target="_blank">fig|224308.1.peg.1830</a></td><td>fig|PF000094</td><td>pfam|PF02770.8</td><td>82</td><td>-247</td><td>4</td></tr>
185    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1830&equivalence=1" target="_blank">fig|224308.1.peg.1830</a></td><td>fig|PF000094</td><td>pfam|PF02771.6</td><td>104</td><td>-250</td><td>4</td></tr>
186    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1830&equivalence=1" target="_blank">fig|224308.1.peg.1830</a></td><td>fig|PF002044</td><td>pfam|PF00441.13</td><td>17</td><td>-11</td><td>1</td></tr>
187    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1830&equivalence=1" target="_blank">fig|224308.1.peg.1830</a></td><td>fig|PF002044</td><td>pfam|PF02770.8</td><td>17</td><td>-11</td><td>1</td></tr>
188    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1830&equivalence=1" target="_blank">fig|224308.1.peg.1830</a></td><td>fig|PF002044</td><td>pfam|PF02771.6</td><td>19</td><td>-12</td><td>1</td></tr>
189    <tr><td>Streptomyces avermitilis MA-4680</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|227882.1.peg.5280&equivalence=1" target="_blank">fig|227882.1.peg.5280</a></td><td>fig|PF003232</td><td>pfam|PF02785.8</td><td>2</td><td>-30</td><td>4</td></tr>
190    <tr><td>Streptomyces avermitilis MA-4680</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|227882.1.peg.5280&equivalence=1" target="_blank">fig|227882.1.peg.5280</a></td><td>fig|PF003232</td><td>pfam|PF00364.11</td><td>0</td><td>-21</td><td>4</td></tr>
191    <tr><td>Streptomyces avermitilis MA-4680</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|227882.1.peg.5280&equivalence=1" target="_blank">fig|227882.1.peg.5280</a></td><td>fig|PF003232</td><td>pfam|PF00289.11</td><td>2</td><td>-30</td><td>4</td></tr>
192    <tr><td>Streptomyces avermitilis MA-4680</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|227882.1.peg.5280&equivalence=1" target="_blank">fig|227882.1.peg.5280</a></td><td>fig|PF003232</td><td>pfam|PF02786.6</td><td>2</td><td>-30</td><td>4</td></tr>
193    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1826&equivalence=1" target="_blank">fig|224308.1.peg.1826</a></td><td>fig|PF000193</td><td>pfam|PF00682.8</td><td>0</td><td>-7</td><td>3</td></tr>
194    <tr><td>Mycobacterium avium subsp. paratuberculosis str. k10</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|262316.1.peg.2310&equivalence=1" target="_blank">fig|262316.1.peg.2310</a></td><td>fig|PF000193</td><td>pfam|PF03328.4</td><td>0</td><td>-34</td><td>1</td></tr>
195    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1829&equivalence=1" target="_blank">fig|224308.1.peg.1829</a></td><td>fig|PF000104</td><td>pfam|PF00501.15</td><td>4</td><td>-280</td><td>1</td></tr>
196    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.1829&equivalence=1" target="_blank">fig|224308.1.peg.1829</a></td><td>fig|PF001188</td><td>pfam|PF00501.15</td><td>5</td><td>-11</td><td>1</td></tr>
197    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.3904&equivalence=1" target="_blank">fig|224308.1.peg.3904</a></td><td>fig|PF000160</td><td>pfam|PF01144.12</td><td>9</td><td>-11</td><td>1</td></tr>
198    <tr><td>Bacillus subtilis subsp. subtilis str. 168</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|224308.1.peg.3904&equivalence=1" target="_blank">fig|224308.1.peg.3904</a></td><td>fig|PF000359</td><td>pfam|PF01144.12</td><td>7</td><td>-19</td><td>1</td></tr>
199    <tr><td>Mycobacterium avium subsp. paratuberculosis str. k10</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|262316.1.peg.3861&equivalence=1" target="_blank">fig|262316.1.peg.3861</a></td><td>fig|PF000530</td><td>pfam|PF01144.12</td><td>12</td><td>-38</td><td>2</td></tr>
200    <tr><td>Mycobacterium avium subsp. paratuberculosis str. k10</td><td><a href="../proteinfamilies.cgi?user=&prot=fig|262316.1.peg.3861&equivalence=1" target="_blank">fig|262316.1.peg.3861</a></td><td>fig|PF003527</td><td>pfam|PF01144.12</td><td>9</td><td>-23</td><td>2</td></tr>
201    </table>
202    

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