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changeset 0:15cff34c2005 draft default tip

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pfamscan commit c27a05e92e6e03545903dd2ff90976f8cab5ebf7
author bgruening
date Sat, 04 Feb 2023 16:33:20 +0000
parents
children
files pfamscan.xml test-data/Pfam-A.hmm.dat.gz test-data/Pfam-A.hmm.gz test-data/active_site.dat.gz test-data/sequences.fasta.gz test-data/test01.tab test-data/test02.tab test-data/test03.tab test-data/test04.tab
diffstat 9 files changed, 261 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/pfamscan.xml	Sat Feb 04 16:33:20 2023 +0000
@@ -0,0 +1,158 @@
+<tool id="pfamscan" name="PfamScan" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@">
+    <description>search a FASTA sequence against a library of Pfam HMM</description>
+    <macros>
+        <token name="@TOOL_VERSION@">1.6</token>
+        <token name="@VERSION_SUFFIX@">0</token>
+    </macros>
+    <xrefs>
+        <xref type="bio.tools">pfamscan</xref>
+    </xrefs>
+    <requirements>
+        <requirement type="package" version="@TOOL_VERSION@">pfam_scan</requirement>
+        <requirement type="package" version="3.3.2">hmmer</requirement>
+    </requirements>
+    <version_command>pfam_scan.pl --version</version_command>
+    <command detect_errors="exit_code"><![CDATA[
+        mkdir -p './pfam_files' &&
+        ln -s '${pfam_library}' './pfam_files/Pfam-A.hmm' &&
+        ln -s '${pfam_data}' './pfam_files/Pfam-A.hmm.dat' &&
+        #if $active_sites.selector == 'true'
+            ln -s '${active_sites.active_file}' './pfam_files/active_site.dat' &&
+        #end if
+        hmmpress './pfam_files/Pfam-A.hmm' &&
+        pfam_scan.pl 
+            -cpu \${GALAXY_SLOTS:-4}
+            -fasta '${fasta}'
+            -dir './pfam_files/'
+            -outfile './output.tab'
+            #if $advanced_options.e_seq
+                -e_seq $advanced_options.e_seq
+            #end if
+            #if $advanced_options.e_dom
+                -e_dom $advanced_options.e_dom
+            #end if
+            #if $advanced_options.b_seq
+                -b_seq $advanced_options.b_seq
+            #end if
+            #if $advanced_options.b_dom
+                -b_dom $advanced_options.b_dom
+            #end if
+            #if $active_sites.selector == 'true'
+             -as
+            #end if
+            && tail -n +28 "./output.tab" > "./output_fixed.tab"
+        ]]>
+    </command>
+    <inputs>
+        <param argument="-fasta" type="data" format="fasta" label="Protein sequences FASTA file"/>
+        <param name="pfam_library" type="data" format="hmm3" label="Pfam-A HMM library" help="Pfam-A HMMs in an HMM library searchable with the hmmscan program." />
+        <param name="pfam_data" type="data" format="stockholm" label="Pfam-A HMM Stockholm file" help="Stockholm format is a multiple sequence alignment format used 
+            by Pfam, Rfam and Dfam, to disseminate protein, RNA and DNA sequence alignments." />
+        <conditional name="active_sites">
+            <param name="selector" type="select" label="Predict active site residues" help="Predict active site residues for Pfam-A matches">
+                <option value="false">Disabled</option>
+                <option value="true" selected="true">Enabled</option>
+            </param>
+            <when value="false"/>
+            <when value="true">
+                <param name="active_file" type="data" format="txt" label="Active sites file" help="This file is required for predicting the active site residues." />
+            </when>
+        </conditional>
+        <section name="advanced_options" title="Advanced options">
+            <param argument="-e_seq" type="float" min="0" value=""  optional="true" label="Hmmscan evalue sequence cutoff" help="Specify hmmscan evalue sequence cutoff 
+                for Pfam-A searches (default Pfam defined)" />
+            <param argument="-e_dom" type="float" min="0" value="" optional="true" label="Hmmscan evalue domain cutoff" help="Specify hmmscan evalue domain cutoff for 
+                Pfam-A searches (default Pfam defined)" />
+            <param argument="-b_seq" type="float" min="0" value=""  optional="true" label="Hmmscan bit score sequence cutoff" help="Specify hmmscan bit score sequence 
+                cutoff for Pfam-A searches (default Pfam defined)" />
+            <param argument="-b_dom" type="float" min="0" value=""  optional="true" label="Hmmscan bit score domain cutoff" help="Specify hmmscan bit score domain cutoff 
+                for Pfam-A searches (default Pfam defined)" />
+            <param argument="-clan_overlap" type="boolean" truevalue="-clan_overlap" falsevalue="" checked="false" label="Clan overlap" help="Show overlapping hits within 
+                clan member families (applies to Pfam-A families only)" />
+            <param argument="-align" type="boolean" truevalue="-align" falsevalue="" checked="false" label="Show alignment" help="Show the HMM-sequence alignment for each match" />
+        </section>
+    </inputs>
+    <outputs>
+        <data name="output" format="tabular" from_work_dir="output_fixed.tab" label="${tool.name} on ${on_string}"/>
+    </outputs>
+    <tests>
+        <!-- Test 01: Default parameters not active sites -->
+        <test expect_num_outputs="1">
+            <param name="fasta" value="sequences.fasta.gz"/>
+            <param name="pfam_library" value="Pfam-A.hmm.gz"/>
+            <param name="pfam_data" value="Pfam-A.hmm.dat.gz"/>
+            <conditional name="active_sites">
+                <param name="selector" value="false"/>
+            </conditional>
+            <output name="output" file="test01.tab" ftype="tabular"/>
+        </test>
+        <!-- Test 02: Default parameters: active sites -->
+        <test expect_num_outputs="1">
+            <param name="fasta" value="sequences.fasta.gz"/>
+            <param name="pfam_library" value="Pfam-A.hmm.gz"/>
+            <param name="pfam_data" value="Pfam-A.hmm.dat.gz"/>
+            <conditional name="active_sites">
+                <param name="selector" value="true"/>
+                <param name="active_file" value="active_site.dat.gz"/>
+            </conditional>
+            <output name="output" file="test02.tab" ftype="tabular"/>
+        </test>
+        <!-- Test 03: Non default parameters: active sites -->
+        <test expect_num_outputs="1">
+            <param name="fasta" value="sequences.fasta.gz"/>
+            <param name="pfam_library" value="Pfam-A.hmm.gz"/>
+            <param name="pfam_data" value="Pfam-A.hmm.dat.gz"/>
+            <section name="advanced_options">
+                <param name="e_seq" value="1.2"/>
+                <param name="e_dom" value="1.3"/>
+                <param name="clan_overlap" value="true"/>
+            </section>
+            <conditional name="active_sites">
+                <param name="selector" value="true"/>
+                <param name="active_file" value="active_site.dat.gz"/>
+            </conditional>
+            <output name="output" file="test03.tab" ftype="tabular"/>
+        </test>
+        <!-- Test 04: Non default parameters: active sites -->
+        <test expect_num_outputs="1">
+            <param name="fasta" value="sequences.fasta.gz"/>
+            <param name="pfam_library" value="Pfam-A.hmm.gz"/>
+            <param name="pfam_data" value="Pfam-A.hmm.dat.gz"/>
+            <section name="advanced_options">
+                <param name="b_seq" value="1.4"/>
+                <param name="b_dom" value="1.2"/>
+                <param name="align" value="true"/>
+            </section>
+            <conditional name="active_sites">
+                <param name="selector" value="true"/>
+                <param name="active_file" value="active_site.dat.gz"/>
+            </conditional>
+            <output name="output" file="test04.tab" ftype="tabular"/>
+        </test>
+    </tests>
+    <help><![CDATA[
+
+.. class:: infomark
+
+**Purpose**
+
+Search one or more sequences for matching Pfam domains. Depending on the user options, the script can also process the results such that overlaps between families belonging to the 
+same clan are resolved and can predict active sites.
+
+----
+
+.. class:: infomark
+
+**Required files**
+
+To run PfamScan you will need to download the following files from the Pfam ftp site:
+
+- Pfam-A HMMs in an HMM library searchable with the hmmscan program: `Pfam-A.hmm.gz <https://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/Pfam-A.hmm.gz>`_
+- Pfam-A HMM Stockholm file associated with each HMM required for PfamScan: `Pfam-A.hmm.dat.gz <https://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/Pfam-A.hmm.dat.gz>`_
+- Active sites: `active_sites.dat.gz <ftp://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/active_site.dat.gz>`_
+
+]]></help>
+    <citations>
+        <citation type="doi">10.1093/nar/gkt006</citation>
+    </citations>
+</tool>
Binary file test-data/Pfam-A.hmm.dat.gz has changed
Binary file test-data/Pfam-A.hmm.gz has changed
Binary file test-data/active_site.dat.gz has changed
Binary file test-data/sequences.fasta.gz has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/test01.tab	Sat Feb 04 16:33:20 2023 +0000
@@ -0,0 +1,14 @@
+# <seq id> <alignment start> <alignment end> <envelope start> <envelope end> <hmm acc> <hmm name> <type> <hmm start> <hmm end> <hmm length> <bit score> <E-value> <significance> <clan>
+
+ENST00000006658.11     79    239     78    240 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.0   4.7e-75   1 CL0172   
+ENST00000282903.10    673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000356488.8      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.1   4.5e-75   1 CL0172   
+ENST00000360060.7     652    736    645    737 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.7   4.3e-08   1 CL0029   
+ENST00000494950.5     618    702    611    703 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.8     4e-08   1 CL0029   
+ENST00000634597.1      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.1   4.5e-75   1 CL0172   
+ENST00000703518.1     673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000703522.1     673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000703523.1     652    736    645    737 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.7   4.3e-08   1 CL0029   
+ENST00000503063.5      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    244.0   2.4e-75   1 CL0172   
+ENST00000512181.5      63    157     62    161 PF03190.18  Thioredox_DsbH    Family     2    96   163    166.2     2e-51   1 CL0172   
+ENST00000512181.5     181    249    177    250 PF03190.18  Thioredox_DsbH    Family    94   162   163     61.8   2.4e-19   1 CL0172   
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/test02.tab	Sat Feb 04 16:33:20 2023 +0000
@@ -0,0 +1,14 @@
+# <seq id> <alignment start> <alignment end> <envelope start> <envelope end> <hmm acc> <hmm name> <type> <hmm start> <hmm end> <hmm length> <bit score> <E-value> <significance> <clan> <predicted_active_site_residues>
+
+ENST00000006658.11     79    239     78    240 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.0   4.7e-75   1 CL0172   
+ENST00000282903.10    673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000356488.8      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.1   4.5e-75   1 CL0172   
+ENST00000360060.7     652    736    645    737 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.7   4.3e-08   1 CL0029   
+ENST00000494950.5     618    702    611    703 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.8     4e-08   1 CL0029   
+ENST00000634597.1      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.1   4.5e-75   1 CL0172   
+ENST00000703518.1     673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000703522.1     673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000703523.1     652    736    645    737 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.7   4.3e-08   1 CL0029   
+ENST00000503063.5      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    244.0   2.4e-75   1 CL0172   
+ENST00000512181.5      63    157     62    161 PF03190.18  Thioredox_DsbH    Family     2    96   163    166.2     2e-51   1 CL0172   
+ENST00000512181.5     181    249    177    250 PF03190.18  Thioredox_DsbH    Family    94   162   163     61.8   2.4e-19   1 CL0172   
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/test03.tab	Sat Feb 04 16:33:20 2023 +0000
@@ -0,0 +1,38 @@
+# <seq id> <alignment start> <alignment end> <envelope start> <envelope end> <hmm acc> <hmm name> <type> <hmm start> <hmm end> <hmm length> <bit score> <E-value> <significance> <clan> <predicted_active_site_residues>
+
+ENST00000006658.11     79    239     78    240 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.0   4.7e-75   1 CL0172   
+ENST00000265594.9      20     94     12    100 PF13532.9   2OG-FeII_Oxy_2    Domain    38   118   194     11.5   0.00086   0 CL0029   
+ENST00000282903.10    673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000346299.10    562    624    556    627 PF12578.11  3-PAP             Family    70   129   132     13.0   0.00022   0 No_clan  
+ENST00000352297.11    490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000356488.8      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.1   4.5e-75   1 CL0172   
+ENST00000360060.7     652    736    645    737 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.7   4.3e-08   1 CL0029   
+ENST00000393106.6      30     91     17     98 PF02826.22  2-Hacid_dh_C      Domain    38    99   178     16.0     2e-05   0 CL0063   
+ENST00000393110.7      40    101     26    108 PF02826.22  2-Hacid_dh_C      Domain    38    99   178     15.9     2e-05   0 CL0063   
+ENST00000409459.5     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000409811.5      30     91     17     98 PF02826.22  2-Hacid_dh_C      Domain    38    99   178     16.1   1.9e-05   0 CL0063   
+ENST00000436648.9     183    256    153    279 PF02826.22  2-Hacid_dh_C      Domain    33   105   178     19.7   1.5e-06   0 CL0063   
+ENST00000436648.9     383    403    376    415 PF02826.22  2-Hacid_dh_C      Domain   133   153   178      0.4       1.2   0 CL0063   
+ENST00000494950.5     618    702    611    703 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.8     4e-08   1 CL0029   
+ENST00000579436.7     382    414    380    416 PF12729.10  4HB_MCP_1         Family   101   133   181      8.7    0.0039   0 CL0457   
+ENST00000591451.5     264    330    234    354 PF02826.22  2-Hacid_dh_C      Domain    33   104   178     18.9   2.6e-06   0 CL0063   
+ENST00000634597.1      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.1   4.5e-75   1 CL0172   
+ENST00000675196.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000675438.1     459    521    453    524 PF12578.11  3-PAP             Family    70   129   132     13.4   0.00018   0 No_clan  
+ENST00000675454.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000675489.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000676166.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000676261.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000676272.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000676440.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000694943.1      67    199     32    239 PF01073.22  3Beta_HSD         Family    49   195   280     14.3   5.1e-05   0 CL0063   predicted_active_site
+ENST00000703518.1     673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000703522.1     673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000703523.1     652    736    645    737 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.7   4.3e-08   1 CL0029   
+ENST00000514335.1     146    275    138    286 PF00244.23  14-3-3            Repeat    24   148   222     13.6   0.00013   0 CL0020   
+ENST00000694942.1      67    259     32    277 PF01073.22  3Beta_HSD         Family    49   257   280     18.6   2.6e-06   0 CL0063   predicted_active_site
+ENST00000503063.5      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    244.0   2.4e-75   1 CL0172   
+ENST00000512181.5      63    157     62    161 PF03190.18  Thioredox_DsbH    Family     2    96   163    166.2     2e-51   1 CL0172   
+ENST00000512181.5     181    249    177    250 PF03190.18  Thioredox_DsbH    Family    94   162   163     61.8   2.4e-19   1 CL0172   
+ENST00000589104.5     681    717    676    737 PF09038.13  53-BP1_Tudor      Domain     8    44   122      8.5    0.0066   0 CL0049   
+ENST00000589104.5     744    782    736    793 PF09038.13  53-BP1_Tudor      Domain    12    51   122      4.7     0.096   0 CL0049   
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/test04.tab	Sat Feb 04 16:33:20 2023 +0000
@@ -0,0 +1,37 @@
+# <seq id> <alignment start> <alignment end> <envelope start> <envelope end> <hmm acc> <hmm name> <type> <hmm start> <hmm end> <hmm length> <bit score> <E-value> <significance> <clan> <predicted_active_site_residues>
+
+ENST00000006658.11     79    239     78    240 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.0   4.7e-75   1 CL0172   
+ENST00000265594.9      20     94     12    100 PF13532.9   2OG-FeII_Oxy_2    Domain    38   118   194     11.5   0.00086   0 CL0029   
+ENST00000282903.10    673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000346299.10    562    624    556    627 PF12578.11  3-PAP             Family    70   129   132     13.0   0.00022   0 No_clan  
+ENST00000352297.11    490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000356488.8      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.1   4.5e-75   1 CL0172   
+ENST00000360060.7     652    736    645    737 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.7   4.3e-08   1 CL0029   
+ENST00000393106.6      30     91     17     98 PF02826.22  2-Hacid_dh_C      Domain    38    99   178     16.0     2e-05   0 CL0063   
+ENST00000393110.7      40    101     26    108 PF02826.22  2-Hacid_dh_C      Domain    38    99   178     15.9     2e-05   0 CL0063   
+ENST00000409459.5     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000409811.5      30     91     17     98 PF02826.22  2-Hacid_dh_C      Domain    38    99   178     16.1   1.9e-05   0 CL0063   
+ENST00000436648.9     183    256    153    279 PF02826.22  2-Hacid_dh_C      Domain    33   105   178     19.7   1.5e-06   0 CL0063   
+ENST00000494950.5     618    702    611    703 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.8     4e-08   1 CL0029   
+ENST00000579436.7     382    414    380    416 PF12729.10  4HB_MCP_1         Family   101   133   181      8.7    0.0039   0 CL0457   
+ENST00000591451.5     264    330    234    354 PF02826.22  2-Hacid_dh_C      Domain    33   104   178     18.9   2.6e-06   0 CL0063   
+ENST00000634597.1      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    243.1   4.5e-75   1 CL0172   
+ENST00000675196.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000675438.1     459    521    453    524 PF12578.11  3-PAP             Family    70   129   132     13.4   0.00018   0 No_clan  
+ENST00000675454.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000675489.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000676166.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000676261.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000676272.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000676440.1     490    552    484    555 PF12578.11  3-PAP             Family    70   129   132     13.3   0.00019   0 No_clan  
+ENST00000694943.1      67    199     32    239 PF01073.22  3Beta_HSD         Family    49   195   280     14.3   5.1e-05   0 CL0063   predicted_active_site
+ENST00000703518.1     673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000703522.1     673    757    666    758 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.6   4.4e-08   1 CL0029   
+ENST00000703523.1     652    736    645    737 PF03171.23  2OG-FeII_Oxy      Domain     6   100   101     25.7   4.3e-08   1 CL0029   
+ENST00000514335.1     146    275    138    286 PF00244.23  14-3-3            Repeat    24   148   222     13.6   0.00013   0 CL0020   
+ENST00000694942.1      67    259     32    277 PF01073.22  3Beta_HSD         Family    49   257   280     18.6   2.6e-06   0 CL0063   predicted_active_site
+ENST00000503063.5      63    223     62    224 PF03190.18  Thioredox_DsbH    Family     2   162   163    244.0   2.4e-75   1 CL0172   
+ENST00000512181.5      63    157     62    161 PF03190.18  Thioredox_DsbH    Family     2    96   163    166.2     2e-51   1 CL0172   
+ENST00000512181.5     181    249    177    250 PF03190.18  Thioredox_DsbH    Family    94   162   163     61.8   2.4e-19   1 CL0172   
+ENST00000589104.5     681    717    676    737 PF09038.13  53-BP1_Tudor      Domain     8    44   122      8.5    0.0066   0 CL0049   
+ENST00000589104.5     744    782    736    793 PF09038.13  53-BP1_Tudor      Domain    12    51   122      4.7     0.096   0 CL0049