Team:Heidelberg/NRPSDesignerDB Curation Table

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{| class="wikitable"
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<table class="table table-hover table-bordered">
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|+ Table 1: Current progress of the manual database curation. Only the consens for curated pathways is displayed. Blue fields indicate a conflict of the different resources.
-
<caption>Table 1: Current progress of the manual database curation. Only the consens for curated pathways is displayed. Blue fields indicate a conflict of the different resources.</caption>
+
|-
-
<thead>
+
! Pathway<br/>(PubMed IDs) !! Gene<br/>(nuccore ID) !! Module !! Domain sequence !! Donor chirality !! A-domain substrate
-
<tr class="header">
+
|-
-
<th align="left"><p>Pathway<br />(PubMed IDs)</p></th>
+
| rowspan="6" | Actinomycin<br/>(9573200) || acmA<br/>(295683927) || 1 || A || - || style="background-color:lightblue" | 4-methyl-3-hydroxyanthranilic acid
-
<th align="left"><p>Gene<br />(nuccore ID)</p></th>
+
|-
-
<th align="left"><p>Module</p></th>
+
| rowspan="2" | acmB<br/>(295683927) || 2 || style="background-color:lightblue" | C_St-A-T || - || Threonine
-
<th align="left"><p>Domain sequence</p></th>
+
|-
-
<th align="left"><p>Donor chirality</p></th>
+
| 3 || style="background-color:lightblue" | C-A-T-CCOM || L || Valine
-
<th align="left"><p>A-domain substrate</p></th>
+
|-
-
</tr>
+
| rowspan="3" | acmC<br/>(295683927) || 4 || style="background-color:lightblue" | NCOM-C-A-T || D || Proline
-
</thead>
+
|-
-
<tbody>
+
| 5 || C-A-NM-T || L || Glycine
-
<tr class="odd">
+
|-
-
<td align="left"><p>Actinomycin<br />(9573200)</p></td>
+
| 6 || C-A-NM-T-TE || L, L (TE) || Valine
-
<td align="left"><p>acmA<br />(295683927)</p></td>
+
|-
-
<td align="left"><p>1</p></td>
+
| rowspan="3" | ACV<br/>(9266851, 21889568, 10715209) || rowspan="3" | acvA<br/>(3117) || 1 || A-T || - || α-Aminoapidic acid
-
<td align="left"><p>A</p></td>
+
|-
-
<td align="left"><p>-</p></td>
+
| 2 || C-A-T || style="background-color:lightblue" | L || Cysteine
-
<td align="left"><p>4-methyl-3-hydroxyanthranilic acid</p></td>
+
|-
-
</tr>
+
| 3 || C-A-T-E-TE || L, D (TE) || Valine
-
<tr class="even">
+
|-
-
<td align="left"><p>acmB<br />(295683927)</p></td>
+
| rowspan="7" | A47934<br/>(12060705) || rowspan="2" | staA<br/>(21911402) || 1 || A-T || - || 4-Hydroxyphenylglycine
-
<td align="left"><p>2</p></td>
+
|-
-
<td align="left"><p>C_St-A-T</p></td>
+
| 2 || C_gl-A-T-E || D || Tyrosine
-
<td align="left"><p>-</p></td>
+
|-
-
<td align="left"><p>Threonine</p></td>
+
| staB<br/>(21911402) || 3 || style="background-color:lightblue" | C_gl-A-T-E*-CCOM || D || 3,5-Dihydroxyphenylglycine
-
</tr>
+
|-
-
<tr class="odd">
+
| rowspan="3" | staC<br/>(21911402) || 4 || NCOM-C_gl-A-T-E || L || 4-Hydroxyphenylglycine
-
<td align="left"><p>3</p></td>
+
|-
-
<td align="left"><p>C-A-T-CCOM</p></td>
+
| 5 || C_gl-A-T-E || D || 4-Hydroxyphenylglycine
-
<td align="left"><p>L</p></td>
+
|-
-
<td align="left"><p>Valine</p></td>
+
| 6 || C_gl-A-T || D || β-Hydroxytyrosine
-
</tr>
+
|-
-
<tr class="even">
+
| staD<br/>(21911402) || 7 || NCOM-C_gl-A-T-C_Xg-TE || L, L (TE) || 3,5-Dihydroxyphenylglycine
-
<td align="left"><p>acmC<br />(295683927)</p></td>
+
|-
-
<td align="left"><p>4</p></td>
+
| rowspan="8" | Anabaenopeptilide<br/>(10931313) || rowspan="2" | adpA<br/>(9715728) || 1 || A-T || - || Gutamine
-
<td align="left"><p>NCOM-C-A-T</p></td>
+
|-
-
<td align="left"><p>D</p></td>
+
| 2 || C-A-T || L | Threonin
-
<td align="left"><p>Proline</p></td>
+
|-
-
</tr>
+
| rowspan="4" | adpB<br/>(9715728) || 3 | C-A-T || L || Homotyrosine
-
<tr class="odd">
+
|-
-
<td align="left"><p>5</p></td>
+
| 4 || C-A-T || L || 3-Amino-6-hydroxy-2-piperidone
-
<td align="left"><p>C-A-NM-T</p></td>
+
|-
-
<td align="left"><p>L</p></td>
+
| 5 || C-A-NM-T || L || Threonin
-
<td align="left"><p>Glycine</p></td>
+
|-
-
</tr>
+
| 6 || C-A-NM-T || L || Tyrosine
-
<tr class="even">
+
|-
-
<td align="left"><p>6</p></td>
+
| adpE<br/>(9715728) || 6 || OM || - || -
-
<td align="left"><p>C-A-NM-T-TE</p></td>
+
|-
-
<td align="left"><p>L, L (TE)</p></td>
+
| adpD<br/>(9715728) || 7 || C-A-T-TE || L, L(TE) || Isoleucine
-
<td align="left"><p>Valine</p></td>
+
|-
-
</tr>
+
| rowspan="11" | Arthrofactin<br/>(14522057) || rowspan="2" | arfA<br/>(29501264) || 1 || C_St-A-T || - || Leucine
-
<tr class="odd">
+
|-
-
<td align="left"><p>ACV<br />(9266851, 21889568, 10715209)</p></td>
+
| 2 || C_du-A-T || D || Aspartic acid
-
<td align="left"><p>acvA<br />(3117)</p></td>
+
|-
-
<td align="left"><p>1</p></td>
+
| rowspan="4" | arfB<br/>(29501264) || 3 || C_du-A-T || D || Threonine
-
<td align="left"><p>A-T</p></td>
+
|-
-
<td align="left"><p>-</p></td>
+
| 4 || C_du-A-T || D || Leucine
-
<td align="left"><p>α-Aminoapidic acid</p></td>
+
|-
-
</tr>
+
| 5 || C_du-A-T || D || Leucine
-
<tr class="even">
+
|-
-
<td align="left"><p>2</p></td>
+
| 6 || C-du-A-T || D || Serine
-
<td align="left"><p>C-A-T</p></td>
+
|-
-
<td align="left"><p>L</p></td>
+
| rowspan="5" | arfC<br/>(29501264) || 7 || C_du-A-T || D || Leucine
-
<td align="left"><p>Cysteine</p></td>
+
|-
-
</tr>
+
| 8 || C-A-T || L || Serine
-
<tr class="odd">
+
|-
-
<td align="left"><p>3</p></td>
+
| 9 || C_du-A-T || D || Isoleucine
-
<td align="left"><p>C-A-T-E-TE</p></td>
+
|-
-
<td align="left"><p>L, D (TE)</p></td>
+
| 10 || C-A-T || L || Isoleucine
-
<td align="left"><p>Valine</p></td>
+
|-
-
</tr>
+
| 11 || C-A-T-TE-TE || L, L (TE) || Apsartic acid
-
<tr class="even">
+
|-
-
<td align="left"><p>A47934<br />(12060705)</p></td>
+
| rowspan="12" | Bacitracin<br/>(9427658) || rowspan="5" | bacA<br/>(4464275) || 1 || A-T || - || Isoleucine
-
<td align="left"><p>staA<br />(21911402)</p></td>
+
|-
-
<td align="left"><p>1</p></td>
+
| 2 || style="background-color:lightblue" | Cy-A-T || L || Cysteine
-
<td align="left"><p>A-T</p></td>
+
|-
-
<td align="left"><p>-</p></td>
+
| 3 || C-A-T || L || Leucine
-
<td align="left"><p>4-Hydroxyphenylglycine</p></td>
+
|-
-
</tr>
+
| 4 || C-A-T-E || L || Glutamic acid
-
<tr class="odd">
+
|-
-
<td align="left"><p>2</p></td>
+
| 5 || C-A-T || D || Isoleucine
-
<td align="left"><p>C_gl-A-T-E</p></td>
+
|-
-
<td align="left"><p>D</p></td>
+
| rowspan="2" | bacB<br/>(4464275) || 6 || C-A-T || L || Lysine
-
<td align="left"><p>Tyrosine</p></td>
+
|-
-
</tr>
+
| 7 || C-A-T-E || L || Ornithine
-
<tr class="even">
+
|-
-
<td align="left"><p>staB<br />(21911402)</p></td>
+
| rowspan="5" | bacC<br/>(4464275) || 8 || style="background-color:lightblue" | NCOM-C-A-T || D || Isoleucine
-
<td align="left"><p>3</p></td>
+
|-
-
<td align="left"><p>C_gl-A-T-E*-CCOM</p></td>
+
| 9 || C-A-T-E || L || Phenylalanine
-
<td align="left"><p>D</p></td>
+
|-
-
<td align="left"><p>3,5-Dihydroxyphenylglycine</p></td>
+
| 10 || C-A-T || D || Histidine
-
</tr>
+
|-
-
<tr class="odd">
+
| 11 || C-A-T-E || L || Aspartic acid
-
<td align="left"><p>staC<br />(21911402)</p></td>
+
|-
-
<td align="left"><p>4</p></td>
+
| 12 || C-A-T-TE || D, L (TE) || Asparagine
-
<td align="left"><p>NCOM-C_gl-A-T-E</p></td>
+
|-
-
<td align="left"><p>L</p></td>
+
| rowspan="11" | CDA<br/>(12445768) || rowspan="6" | cdaPSI<br/>(24426505) || 1 || style="background-color:lightblue" | C_St-A-T || - || Serine
-
<td align="left"><p>4-Hydroxyphenylglycine</p></td>
+
|-
-
</tr>
+
| 2 || C-A-T || L || Threonine
-
<tr class="even">
+
|-
-
<td align="left"><p>5</p></td>
+
| 3 || style="background-color:lightblue" | C-A-T-E || L || Tryptophan
-
<td align="left"><p>C_gl-A-T-E</p></td>
+
|-
-
<td align="left"><p>D</p></td>
+
| 4 || C-A-T || D || Aspartic acid
-
<td align="left"><p>4-Hydroxyphenylglycine</p></td>
+
|-
-
</tr>
+
| 5 || C-A-T || L || Aspartic acid
-
<tr class="odd">
+
|-
-
<td align="left"><p>6</p></td>
+
| 6 || style="background-color:lightblue" | C-A-T-E || L || 4-Hydroxyphenylglycine
-
<td align="left"><p>C_gl-A-T</p></td>
+
|-
-
<td align="left"><p>D</p></td>
+
| rowspan="3" | cdaPS2<br/>(24426505)|| 7 || style="background-color:lightblue" | C_gl-A-T || D || Aspartic acid
-
<td align="left"><p>β-Hydroxytyrosine</p></td>
+
|-
-
</tr>
+
| 8 || C-A-T || L || Glycine
-
<tr class="even">
+
|-
-
<td align="left"><p>staD<br />(21911402)</p></td>
+
| 9 || style="background-color:lightblue" | C-A-T-E || L || Asparagine
-
<td align="left"><p>7</p></td>
+
|-
-
<td align="left"><p>NCOM-C_gl-A-T-C_Xg-TE</p></td>
+
| rowspan="2" | cdaPS3<br/>(24426505) || 10 || style="background-color:lightblue" | NCOM-C-A-T || D || style="background-color:lightblue" | Glutamic acid and 3-methylglutamic acid
-
<td align="left"><p>L, L (TE)</p></td>
+
|-
-
<td align="left"><p>3,5-Dihydroxyphenylglycine</p></td>
+
| 11 || C-A-T-TE || L, L (TE) || Tryptophan
-
</tr>
+
|-
-
<tr class="odd">
+
| rowspan="12" | Cyclosporin<br/>(8376400, 16895337, 8175682) || rowspan="12" | simA<br/>(440168) || 1 || C_St-A-T || - || D-Alanine
-
<td align="left"><p>Anabaenopeptilide<br />(10931313)</p></td>
+
|-
-
<td align="left"><p>adpA<br />(9715728)</p></td>
+
| 2 || C-A-NM-T || L || Leucine  
-
<td align="left"><p>1</p></td>
+
|-
-
<td align="left"><p>A-T</p></td>
+
| 3 || C-A-NM-T || L || Leucine  
-
<td align="left"><p>-</p></td>
+
|-
-
<td align="left"><p>Gutamine</p></td>
+
| 4 || C-A-NM-T || L || Valine  
-
</tr>
+
|-
-
<tr class="even">
+
| 5 || C-A-NM-T || L || 2-Butenyl-4-methylthreonine  
-
<td align="left"><p>2</p></td>
+
|-
-
<td align="left"><p>C-A-T</p></td>
+
| 6 || C-A-T || L || α-Aminobutyric acid
-
<td align="left"><p>L | Threonin</p></td>
+
|-
-
</tr>
+
| 7 || C-A-NM-T || L || style="background-color:lightblue" | Glycine
-
<tr class="odd">
+
|-
-
<td align="left"><p>adpB<br />(9715728)</p></td>
+
| 8 || C-A-NM-T || L || Leucine  
-
<td align="left"><p>3 | C-A-T</p></td>
+
|-
-
<td align="left"><p>L</p></td>
+
| 9 || C-A-T || L || Valine
-
<td align="left"><p>Homotyrosine</p></td>
+
|-
-
</tr>
+
| 10 || C-A-NM-T || L || Leucine
-
<tr class="even">
+
|-
-
<td align="left"><p>4</p></td>
+
| 11 || C-A-T || L || Alanine
-
<td align="left"><p>C-A-T</p></td>
+
|-
-
<td align="left"><p>L</p></td>
+
| colspan="4" style="background-color:lightblue" | Final C-domain predicted probably has TE-domain funtion. deleted
-
<td align="left"><p>3-Amino-6-hydroxy-2-piperidone</p></td>
+
|-
-
</tr>
+
| rowspan="5" | Gramicidine<br/>(1560782) || gramicidin S synthethase 1<br/>(216277) || 1 || A-T-E || - || Phenylalanine
-
<tr class="odd">
+
|-
-
<td align="left"><p>5</p></td>
+
| rowspan="4" | grsB<br/>(39371) || 2 || style="background-color:lightblue" | NCOM-C-A-T || D || Proline
-
<td align="left"><p>C-A-NM-T</p></td>
+
|-
-
<td align="left"><p>L</p></td>
+
| 3 || C-A-T || L || Valine
-
<td align="left"><p>Threonin</p></td>
+
|-
-
</tr>
+
| 4 || C-A-T || L || Ornithine
-
<tr class="even">
+
|-
-
<td align="left"><p>6</p></td>
+
| 5 || C-A-T-TE || L, L (TE) || Leucine
-
<td align="left"><p>C-A-NM-T</p></td>
+
|-
-
<td align="left"><p>L</p></td>
+
| Indigoidine || indC<br/>(36785405) || 1 || AOxA-T-TE || x || Glutamine
-
<td align="left"><p>Tyrosine</p></td>
+
|-
-
</tr>
+
| rowspan="8" | Lichenycin<br/>(9864322) || rowspan="3" | licA<br/>(3080741) || 1 || style="background-color:lightblue" | C_St-A-T || - || Glutamine
-
<tr class="odd">
+
|-
-
<td align="left"><p>adpE<br />(9715728)</p></td>
+
| 2 || C-A-T || L || Leucine
-
<td align="left"><p>6</p></td>
+
|-
-
<td align="left"><p>OM</p></td>
+
| 3 || C-A-T-E || L || Leucine
-
<td align="left"><p>-</p></td>
+
|-
-
<td align="left"><p>-</p></td>
+
| rowspan="3" | licB<br/>(3080741) || 4 || style="background-color:lightblue" | NCOM-C-A-T || D || Valine
-
</tr>
+
|-
-
<tr class="even">
+
| 5 || C-A-T || L || Aspartic acid
-
<td align="left"><p>adpD<br />(9715728)</p></td>
+
|-
-
<td align="left"><p>7</p></td>
+
| 6 || C-A-T-E || L || Leucine
-
<td align="left"><p>C-A-T-TE</p></td>
+
|-
-
<td align="left"><p>L, L(TE)</p></td>
+
| licC<br/>(3080741) || 7 || style="background-color:lightblue" | NCOM-C-A-T-TE || D, L (TE) || Isoleucine
-
<td align="left"><p>Isoleucine</p></td>
+
|-
-
</tr>
+
| licTE<br/>(3080741) || colspan="4" style="background-color:lightblue" | removed due to unknown function of single TE-domain
-
<tr class="odd">
+
|-
-
<td align="left"><p>Arthrofactin<br />(14522057)</p></td>
+
| rowspan="8" | Syringomycin<br/>(9830033) || rowspan="7" | syrE || 1 || style="background-color:lightblue" | C_St-A-T || - || Serine
-
<td align="left"><p>arfA<br />(29501264)</p></td>
+
|-
-
<td align="left"><p>1</p></td>
+
| 2 || style="background-color:lightblue" | C_du-A-T || L || Serine
-
<td align="left"><p>C_St-A-T</p></td>
+
|-
-
<td align="left"><p>-</p></td>
+
| 3 || style="background-color:lightblue" | C_du-A-T || D || 2,4-Diaminobutyric acid
-
<td align="left"><p>Leucine</p></td>
+
|-
-
</tr>
+
| 4 || style="background-color:lightblue" | C_du-A-T || D || 2,4-Diaminobutyric acid
-
<tr class="even">
+
|-
-
<td align="left"><p>2</p></td>
+
| 5 || C-A-T || L || Arginine
-
<td align="left"><p>C_du-A-T</p></td>
+
|-
-
<td align="left"><p>D</p></td>
+
| 6 || C-A-T || L || Phenylalanine
-
<td align="left"><p>Aspartic acid</p></td>
+
|-
-
</tr>
+
| 8 || style="background-color:lightblue" | C_du-A-T-(deleted)-TE || - || Aspartic acid
-
<tr class="odd">
+
|-
-
<td align="left"><p>arfB<br />(29501264)</p></td>
+
| syrB1 || colspan="4" style="background-color:lightblue" | removed due to specialised protein interaction of module fragments
-
<td align="left"><p>3</p></td>
+
|-
-
<td align="left"><p>C_du-A-T</p></td>
+
| rowspan="10" | Tyrocidine<br/>(9352938) || tycA<br/>(AF004835) || 1 || A-T-E || - || Phenylalanine
-
<td align="left"><p>D</p></td>
+
|-
-
<td align="left"><p>Threonine</p></td>
+
| rowspan="3" | tycB<br/>(AF004835) || 2 || C-A-T || L || Proline
-
</tr>
+
|-
-
<tr class="even">
+
| 3 || C-A-T || L || Phenylalanine
-
<td align="left"><p>4</p></td>
+
|-
-
<td align="left"><p>C_du-A-T</p></td>
+
| 4 || C-A-T-E || L || Phenylalanine
-
<td align="left"><p>D</p></td>
+
|-
-
<td align="left"><p>Leucine</p></td>
+
| rowspan="6" | tycC<br/>(AF004835) || 5 || C-A-T || L || Asparagine
-
</tr>
+
|-
-
<tr class="odd">
+
| 6 || C-A-T || L || Glutamine
-
<td align="left"><p>5</p></td>
+
|-
-
<td align="left"><p>C_du-A-T</p></td>
+
| 7 || C-A-T || L || Tyrosine
-
<td align="left"><p>D</p></td>
+
|-
-
<td align="left"><p>Leucine</p></td>
+
| 8 || C-A-T || L || Valine
-
</tr>
+
|-
-
<tr class="even">
+
| 9 || C-A-T || L || Ornithine
-
<td align="left"><p>6</p></td>
+
|-
-
<td align="left"><p>C-du-A-T</p></td>
+
| 10 || C-A-T-TE || L, L (TE) || Leucine
-
<td align="left"><p>D</p></td>
+
|-
-
<td align="left"><p>Serine</p></td>
+
| rowspan="2" | Zwittermicin A<br/>(19098220) || rowspan="2" | zmaQ<br/>(223047469) || 9 || A-T || - || Leucine
-
</tr>
+
|-
-
<tr class="odd">
+
| 10 || C-A-T-TE || L || Methionine
-
<td align="left"><p>arfC<br />(29501264)</p></td>
+
|}
-
<td align="left"><p>7</p></td>
+
-
<td align="left"><p>C_du-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>8</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Serine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>9</p></td>
+
-
<td align="left"><p>C_du-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>Isoleucine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>10</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Isoleucine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>11</p></td>
+
-
<td align="left"><p>C-A-T-TE-TE</p></td>
+
-
<td align="left"><p>L, L (TE)</p></td>
+
-
<td align="left"><p>Apsartic acid</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>Bacitracin<br />(9427658)</p></td>
+
-
<td align="left"><p>bacA<br />(4464275)</p></td>
+
-
<td align="left"><p>1</p></td>
+
-
<td align="left"><p>A-T</p></td>
+
-
<td align="left"><p>-</p></td>
+
-
<td align="left"><p>Isoleucine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>2</p></td>
+
-
<td align="left"><p>Cy-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Cysteine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>3</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>4</p></td>
+
-
<td align="left"><p>C-A-T-E</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Glutamic acid</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>5</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>Isoleucine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>bacB<br />(4464275)</p></td>
+
-
<td align="left"><p>6</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Lysine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>7</p></td>
+
-
<td align="left"><p>C-A-T-E</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Ornithine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>bacC<br />(4464275)</p></td>
+
-
<td align="left"><p>8</p></td>
+
-
<td align="left"><p>NCOM-C-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>Isoleucine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>9</p></td>
+
-
<td align="left"><p>C-A-T-E</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Phenylalanine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>10</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>Histidine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>11</p></td>
+
-
<td align="left"><p>C-A-T-E</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Aspartic acid</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>12</p></td>
+
-
<td align="left"><p>C-A-T-TE</p></td>
+
-
<td align="left"><p>D, L (TE)</p></td>
+
-
<td align="left"><p>Asparagine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>CDA<br />(12445768)</p></td>
+
-
<td align="left"><p>cdaPSI<br />(24426505)</p></td>
+
-
<td align="left"><p>1</p></td>
+
-
<td align="left"><p>C_St-A-T</p></td>
+
-
<td align="left"><p>-</p></td>
+
-
<td align="left"><p>Serine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>2</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Threonine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>3</p></td>
+
-
<td align="left"><p>C-A-T-E</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Tryptophan</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>4</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>Aspartic acid</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>5</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Aspartic acid</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>6</p></td>
+
-
<td align="left"><p>C-A-T-E</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>4-Hydroxyphenylglycine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>cdaPS2<br />(24426505)</p></td>
+
-
<td align="left"><p>7</p></td>
+
-
<td align="left"><p>C_gl-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>Aspartic acid</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>8</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Glycine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>9</p></td>
+
-
<td align="left"><p>C-A-T-E</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Asparagine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>cdaPS3<br />(24426505)</p></td>
+
-
<td align="left"><p>10</p></td>
+
-
<td align="left"><p>NCOM-C-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>Glutamic acid and 3-methylglutamic acid</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>11</p></td>
+
-
<td align="left"><p>C-A-T-TE</p></td>
+
-
<td align="left"><p>L, L (TE)</p></td>
+
-
<td align="left"><p>Tryptophan</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>Cyclosporin<br />(8376400, 16895337, 8175682)</p></td>
+
-
<td align="left"><p>simA<br />(440168)</p></td>
+
-
<td align="left"><p>1</p></td>
+
-
<td align="left"><p>C_St-A-T</p></td>
+
-
<td align="left"><p>-</p></td>
+
-
<td align="left"><p>D-Alanine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>2</p></td>
+
-
<td align="left"><p>C-A-NM-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>3</p></td>
+
-
<td align="left"><p>C-A-NM-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>4</p></td>
+
-
<td align="left"><p>C-A-NM-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Valine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>5</p></td>
+
-
<td align="left"><p>C-A-NM-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>2-Butenyl-4-methylthreonine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>6</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>α-Aminobutyric acid</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>7</p></td>
+
-
<td align="left"><p>C-A-NM-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Glycine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>8</p></td>
+
-
<td align="left"><p>C-A-NM-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>9</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Valine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>10</p></td>
+
-
<td align="left"><p>C-A-NM-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>11</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Alanine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>Final C-domain predicted probably has TE-domain funtion. deleted</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>Gramicidine<br />(1560782)</p></td>
+
-
<td align="left"><p>gramicidin S synthethase 1<br />(216277)</p></td>
+
-
<td align="left"><p>1</p></td>
+
-
<td align="left"><p>A-T-E</p></td>
+
-
<td align="left"><p>-</p></td>
+
-
<td align="left"><p>Phenylalanine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>grsB<br />(39371)</p></td>
+
-
<td align="left"><p>2</p></td>
+
-
<td align="left"><p>NCOM-C-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>Proline</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>3</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Valine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>4</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Ornithine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>5</p></td>
+
-
<td align="left"><p>C-A-T-TE</p></td>
+
-
<td align="left"><p>L, L (TE)</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>Indigoidine</p></td>
+
-
<td align="left"><p>indC<br />(36785405)</p></td>
+
-
<td align="left"><p>1</p></td>
+
-
<td align="left"><p>AOxA-T-TE</p></td>
+
-
<td align="left"><p>x</p></td>
+
-
<td align="left"><p>Glutamine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>Lichenycin<br />(9864322)</p></td>
+
-
<td align="left"><p>licA<br />(3080741)</p></td>
+
-
<td align="left"><p>1</p></td>
+
-
<td align="left"><p>C_St-A-T</p></td>
+
-
<td align="left"><p>-</p></td>
+
-
<td align="left"><p>Glutamine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>2</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>3</p></td>
+
-
<td align="left"><p>C-A-T-E</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>licB<br />(3080741)</p></td>
+
-
<td align="left"><p>4</p></td>
+
-
<td align="left"><p>NCOM-C-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>Valine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>5</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Aspartic acid</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>6</p></td>
+
-
<td align="left"><p>C-A-T-E</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>licC<br />(3080741)</p></td>
+
-
<td align="left"><p>7</p></td>
+
-
<td align="left"><p>NCOM-C-A-T-TE</p></td>
+
-
<td align="left"><p>D, L (TE)</p></td>
+
-
<td align="left"><p>Isoleucine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>licTE<br />(3080741)</p></td>
+
-
<td align="left"><p>removed due to unknown function of single TE-domain</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>Syringomycin<br />(9830033)</p></td>
+
-
<td align="left"><p>syrE</p></td>
+
-
<td align="left"><p>1</p></td>
+
-
<td align="left"><p>C_St-A-T</p></td>
+
-
<td align="left"><p>-</p></td>
+
-
<td align="left"><p>Serine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>2</p></td>
+
-
<td align="left"><p>C_du-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Serine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>3</p></td>
+
-
<td align="left"><p>C_du-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>2,4-Diaminobutyric acid</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>4</p></td>
+
-
<td align="left"><p>C_du-A-T</p></td>
+
-
<td align="left"><p>D</p></td>
+
-
<td align="left"><p>2,4-Diaminobutyric acid</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>5</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Arginine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>6</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Phenylalanine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>8</p></td>
+
-
<td align="left"><p>C_du-A-T-(deleted)-TE</p></td>
+
-
<td align="left"><p>-</p></td>
+
-
<td align="left"><p>Aspartic acid</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>syrB1</p></td>
+
-
<td align="left"><p>removed due to specialised protein interaction of module fragments</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>Tyrocidine<br />(9352938)</p></td>
+
-
<td align="left"><p>tycA<br />(AF004835)</p></td>
+
-
<td align="left"><p>1</p></td>
+
-
<td align="left"><p>A-T-E</p></td>
+
-
<td align="left"><p>-</p></td>
+
-
<td align="left"><p>Phenylalanine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>tycB<br />(AF004835)</p></td>
+
-
<td align="left"><p>2</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Proline</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>3</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Phenylalanine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>4</p></td>
+
-
<td align="left"><p>C-A-T-E</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Phenylalanine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>tycC<br />(AF004835)</p></td>
+
-
<td align="left"><p>5</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Asparagine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>6</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Glutamine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>7</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Tyrosine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>8</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Valine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>9</p></td>
+
-
<td align="left"><p>C-A-T</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Ornithine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>10</p></td>
+
-
<td align="left"><p>C-A-T-TE</p></td>
+
-
<td align="left"><p>L, L (TE)</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="odd">
+
-
<td align="left"><p>Zwittermicin A<br />(19098220)</p></td>
+
-
<td align="left"><p>zmaQ<br />(223047469)</p></td>
+
-
<td align="left"><p>9</p></td>
+
-
<td align="left"><p>A-T</p></td>
+
-
<td align="left"><p>-</p></td>
+
-
<td align="left"><p>Leucine</p></td>
+
-
</tr>
+
-
<tr class="even">
+
-
<td align="left"><p>10</p></td>
+
-
<td align="left"><p>C-A-T-TE</p></td>
+
-
<td align="left"><p>L</p></td>
+
-
<td align="left"><p>Methionine</p></td>
+
-
</tr>
+
-
</tbody>
+
-
</table>
+
-
 
-
</html>
 
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{{:Team:Heidelberg/Templates/Footer-Nav}}

Revision as of 20:59, 4 October 2013

Table 1: Current progress of the manual database curation. Only the consens for curated pathways is displayed. Blue fields indicate a conflict of the different resources.
Pathway
(PubMed IDs) 		Gene
(nuccore ID) 		Module Domain sequence Donor chirality A-domain substrate
Actinomycin
(9573200) 		acmA
(295683927) 		1 A - 4-methyl-3-hydroxyanthranilic acid
acmB
(295683927) 		2 C_St-A-T - Threonine
3 C-A-T-CCOM L Valine
acmC
(295683927) 		4 NCOM-C-A-T D Proline
5 C-A-NM-T L Glycine
6 C-A-NM-T-TE L, L (TE) Valine
ACV
(9266851, 21889568, 10715209) 		acvA
(3117) 		1 A-T - α-Aminoapidic acid
2 C-A-T L Cysteine
3 C-A-T-E-TE L, D (TE) Valine
A47934
(12060705) 		staA
(21911402) 		1 A-T - 4-Hydroxyphenylglycine
2 C_gl-A-T-E D Tyrosine
staB
(21911402) 		3 C_gl-A-T-E*-CCOM D 3,5-Dihydroxyphenylglycine
staC
(21911402) 		4 NCOM-C_gl-A-T-E L 4-Hydroxyphenylglycine
5 C_gl-A-T-E D 4-Hydroxyphenylglycine
6 C_gl-A-T D β-Hydroxytyrosine
staD
(21911402) 		7 NCOM-C_gl-A-T-C_Xg-TE L, L (TE) 3,5-Dihydroxyphenylglycine
Anabaenopeptilide
(10931313) 		adpA
(9715728) 		1 A-T - Gutamine
2 C-A-T Threonin
adpB
(9715728) 		C-A-T L Homotyrosine
4 C-A-T L 3-Amino-6-hydroxy-2-piperidone
5 C-A-NM-T L Threonin
6 C-A-NM-T L Tyrosine
adpE
(9715728) 		6 OM - -
adpD
(9715728) 		7 C-A-T-TE L, L(TE) Isoleucine
Arthrofactin
(14522057) 		arfA
(29501264) 		1 C_St-A-T - Leucine
2 C_du-A-T D Aspartic acid
arfB
(29501264) 		3 C_du-A-T D Threonine
4 C_du-A-T D Leucine
5 C_du-A-T D Leucine
6 C-du-A-T D Serine
arfC
(29501264) 		7 C_du-A-T D Leucine
8 C-A-T L Serine
9 C_du-A-T D Isoleucine
10 C-A-T L Isoleucine
11 C-A-T-TE-TE L, L (TE) Apsartic acid
Bacitracin
(9427658) 		bacA
(4464275) 		1 A-T - Isoleucine
2 Cy-A-T L Cysteine
3 C-A-T L Leucine
4 C-A-T-E L Glutamic acid
5 C-A-T D Isoleucine
bacB
(4464275) 		6 C-A-T L Lysine
7 C-A-T-E L Ornithine
bacC
(4464275) 		8 NCOM-C-A-T D Isoleucine
9 C-A-T-E L Phenylalanine
10 C-A-T D Histidine
11 C-A-T-E L Aspartic acid
12 C-A-T-TE D, L (TE) Asparagine
CDA
(12445768) 		cdaPSI
(24426505) 		1 C_St-A-T - Serine
2 C-A-T L Threonine
3 C-A-T-E L Tryptophan
4 C-A-T D Aspartic acid
5 C-A-T L Aspartic acid
6 C-A-T-E L 4-Hydroxyphenylglycine
cdaPS2
(24426505)		 7 C_gl-A-T D Aspartic acid
8 C-A-T L Glycine
9 C-A-T-E L Asparagine
cdaPS3
(24426505) 		10 NCOM-C-A-T D Glutamic acid and 3-methylglutamic acid
11 C-A-T-TE L, L (TE) Tryptophan
Cyclosporin
(8376400, 16895337, 8175682) 		simA
(440168) 		1 C_St-A-T - D-Alanine
2 C-A-NM-T L Leucine
3 C-A-NM-T L Leucine
4 C-A-NM-T L Valine
5 C-A-NM-T L 2-Butenyl-4-methylthreonine
6 C-A-T L α-Aminobutyric acid
7 C-A-NM-T L Glycine
8 C-A-NM-T L Leucine
9 C-A-T L Valine
10 C-A-NM-T L Leucine
11 C-A-T L Alanine
Final C-domain predicted probably has TE-domain funtion. deleted
Gramicidine
(1560782) 		gramicidin S synthethase 1
(216277) 		1 A-T-E - Phenylalanine
grsB
(39371) 		2 NCOM-C-A-T D Proline
3 C-A-T L Valine
4 C-A-T L Ornithine
5 C-A-T-TE L, L (TE) Leucine
Indigoidine indC
(36785405) 		1 AOxA-T-TE x Glutamine
Lichenycin
(9864322) 		licA
(3080741) 		1 C_St-A-T - Glutamine
2 C-A-T L Leucine
3 C-A-T-E L Leucine
licB
(3080741) 		4 NCOM-C-A-T D Valine
5 C-A-T L Aspartic acid
6 C-A-T-E L Leucine
licC
(3080741) 		7 NCOM-C-A-T-TE D, L (TE) Isoleucine
licTE
(3080741) 		removed due to unknown function of single TE-domain
Syringomycin
(9830033) 		syrE 1 C_St-A-T - Serine
2 C_du-A-T L Serine
3 C_du-A-T D 2,4-Diaminobutyric acid
4 C_du-A-T D 2,4-Diaminobutyric acid
5 C-A-T L Arginine
6 C-A-T L Phenylalanine
8 C_du-A-T-(deleted)-TE - Aspartic acid
syrB1 removed due to specialised protein interaction of module fragments
Tyrocidine
(9352938) 		tycA
(AF004835) 		1 A-T-E - Phenylalanine
tycB
(AF004835) 		2 C-A-T L Proline
3 C-A-T L Phenylalanine
4 C-A-T-E L Phenylalanine
tycC
(AF004835) 		5 C-A-T L Asparagine
6 C-A-T L Glutamine
7 C-A-T L Tyrosine
8 C-A-T L Valine
9 C-A-T L Ornithine
10 C-A-T-TE L, L (TE) Leucine
Zwittermicin A
(19098220) 		zmaQ
(223047469) 		9 A-T - Leucine
10 C-A-T-TE L Methionine

Thanks to

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