content/3.defense-systems/rexab.md

@@ -10,6 +10,8 @@ tableColumns:
     Activator: Direct
     Effector: Membrane disrupting
     PFAM: PF15968, PF15969
+relevantAbstracts:
+    - doi: 10.1101/gad.6.3.497
 ---
 
 # RexAB
@@ -34,25 +36,23 @@ The system was detected in 18 different species.
 Proportion of genome encoding the RexAB system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### RexAB
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rexab/RexAB,RexAB_RexA,0,V-plddts_80.37265.pdb
----
-::
+dataUrls:
+   - /rexab/RexAB.RexAB_RexB.0.V.cif
+   - /rexab/RexAB.RexAB_RexA.0.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rexab/RexAB,RexAB_RexB,0,V-plddts_87.11344.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Parma_1992[<a href='https://doi.org/10.1101/gad.6.3.497'>Parma et al., 1992</a>] --> Origin_0
@@ -77,13 +77,4 @@ end
     style Title3 fill:none,stroke:none,stroke-width:none
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
-## Relevant abstracts
-
-::relevant-abstracts
----
-items:
-    - doi: 10.1101/gad.6.3.497
-
----
-::
 

content/3.defense-systems/rloc.md

@@ -10,6 +10,9 @@ tableColumns:
     Activator: Unknown
     Effector: Nucleic acid degrading
     PFAM: PF13166
+relevantAbstracts:
+    - doi: 10.1111/j.1365-2958.2008.06387.x
+    - doi: 10.1111/mmi.13074
 ---
 
 # RloC
@@ -34,18 +37,22 @@ The system was detected in 919 different species.
 Proportion of genome encoding the RloC system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### RloC
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rloc/RloC__RloC-plddts_86.73175.pdb
+dataUrls:
+   - /rloc/RloC__RloC.cif
+
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Penner_1995[<a href='https://doi.org/10.1006/jmbi.1995.0343'>Penner et al., 1995</a>] --> Origin_0
@@ -68,14 +75,4 @@ end
     style Title3 fill:none,stroke:none,stroke-width:none
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
-## Relevant abstracts
-
-::relevant-abstracts
----
-items:
-    - doi: 10.1111/j.1365-2958.2008.06387.x
-    - doi: 10.1111/mmi.13074
-
----
-::
 

content/3.defense-systems/rnlab.md

@@ -10,6 +10,8 @@ tableColumns:
     Activator: Direct
     Effector: Nucleic acid degrading
     PFAM: PF15933, PF15935, PF18869, PF19034
+relevantAbstracts:
+    - doi: 10.1534/genetics.110.121798
 ---
 
 # RnlAB
@@ -34,25 +36,23 @@ The system was detected in 68 different species.
 Proportion of genome encoding the RnlAB system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### RnlAB
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rnlab/RnlAB,RnlAB__RnlA,0,DF-plddts_91.3649.pdb
----
-::
+dataUrls:
+   - /rnlab/RnlAB.RnlAB__RnlA.0.DF.cif
+   - /rnlab/RnlAB.RnlAB__RnlB.0.DF.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rnlab/RnlAB,RnlAB__RnlB,0,DF-plddts_92.42543.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Koga_2011[<a href='https://doi.org/10.1534/genetics.110.121798'>Koga et al., 2011</a>] --> Origin_0
@@ -75,13 +75,4 @@ end
     style Title3 fill:none,stroke:none,stroke-width:none
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
-## Relevant abstracts
-
-::relevant-abstracts
----
-items:
-    - doi: 10.1534/genetics.110.121798
-
----
-::
 

content/3.defense-systems/rosmerta.md

@@ -47,25 +47,23 @@ The system was detected in 613 different species.
 Proportion of genome encoding the RosmerTA system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### RosmerTA
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rosmerta/RosmerTA,RosmerTA__RmrA,0,V-plddts_88.40961.pdb
----
-::
+dataUrls:
+   - /rosmerta/RosmerTA.RosmerTA__RmrA.0.V.cif
+   - /rosmerta/RosmerTA.RosmerTA__RmrT.0.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rosmerta/RosmerTA,RosmerTA__RmrT,0,V-plddts_84.3404.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Millman_2022[<a href='https://doi.org/10.1016/j.chom.2022.09.017'>Millman et al., 2022</a>] --> Origin_0

content/3.defense-systems/rst_2tm_1tm_tir.md

@@ -49,32 +49,22 @@ The system was detected in 1 different species.
 Proportion of genome encoding the Rst_2TM_1TM_TIR system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### Rst_2TM_1TM_TIR
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rst_2tm_1tm_tir/Rst_2TM_1TM_TIR,Rst_2TM_1TM_TIR__Rst_1TM_TIR,0,V-plddts_90.66226.pdb
----
-::
+dataUrls:
+   - /rst_2tm_1tm_tir/Rst_2TM_1TM_TIR.Rst_2TM_1TM_TIR__Rst_2TM_TIR.0.V.cif
+   - /rst_2tm_1tm_tir/Rst_2TM_1TM_TIR.Rst_2TM_1TM_TIR__Rst_1TM_TIR.0.V.cif
+   - /rst_2tm_1tm_tir/Rst_2TM_1TM_TIR.Rst_2TM_1TM_TIR__Rst_TIR_tm.0.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rst_2tm_1tm_tir/Rst_2TM_1TM_TIR,Rst_2TM_1TM_TIR__Rst_2TM_TIR,0,V-plddts_78.12882.pdb
----
-::
-
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rst_2tm_1tm_tir/Rst_2TM_1TM_TIR,Rst_2TM_1TM_TIR__Rst_TIR_tm,0,V-plddts_67.05466.pdb
----
-::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Rousset_2022[<a href='https://doi.org/10.1016/j.chom.2022.02.018'>Rousset et al., 2022</a>] --> Origin_0

content/3.defense-systems/rst_3hp.md

@@ -47,32 +47,24 @@ The system was detected in 89 different species.
 Proportion of genome encoding the Rst_3HP system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### Rst_3HP
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rst_3hp/Rst_3HP,Rst_3HP__Hp1,0,V-plddts_92.97739.pdb
----
-::
+dataUrls:
+   - /rst_3hp/Rst_3HP.Rst_3HP__Hp1.0.V.cif
+   - /rst_3hp/Rst_3HP.Rst_3HP__Hp3.0.V.cif
+   - /rst_3hp/Rst_3HP.Rst_3HP__Hp2.0.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rst_3hp/Rst_3HP,Rst_3HP__Hp2,0,V-plddts_89.72402.pdb
----
-::
-
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rst_3hp/Rst_3HP,Rst_3HP__Hp3,0,V-plddts_95.1843.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Rousset_2022[<a href='https://doi.org/10.1016/j.chom.2022.02.018'>Rousset et al., 2022</a>] --> Origin_0
@@ -98,3 +90,4 @@ end
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
 
+

content/3.defense-systems/rst_duf4238.md

@@ -10,6 +10,8 @@ tableColumns:
     Activator: Unknown
     Effector: Unknown
     PFAM: PF14022
+relevantAbstracts:
+    - doi: 10.1016/j.chom.2022.02.018
 ---
 
 # Rst_DUF4238
@@ -34,18 +36,22 @@ The system was detected in 37 different species.
 Proportion of genome encoding the Rst_DUF4238 system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### Rst_DUF4238
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rst_duf4238/Rst_DUF4238__DUF4238_Pers-plddts_94.11236.pdb
+dataUrls:
+   - /rst_duf4238/Rst_DUF4238__DUF4238_Pers.cif
+
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Rousset_2022[<a href='https://doi.org/10.1016/j.chom.2022.02.018'>Rousset et al., 2022</a>] --> Origin_0
@@ -69,13 +75,4 @@ end
     style Title3 fill:none,stroke:none,stroke-width:none
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
-## Relevant abstracts
-
-::relevant-abstracts
----
-items:
-    - doi: 10.1016/j.chom.2022.02.018
-
----
-::
 

content/3.defense-systems/rst_gop_beta_cll.md

@@ -10,6 +10,8 @@ tableColumns:
     Activator: Unknown
     Effector: Unknown
     PFAM: PF14350
+relevantAbstracts:
+    - doi: 10.1016/j.chom.2022.02.018
 ---
 
 # Rst_gop_beta_cll
@@ -34,32 +36,24 @@ The system was detected in 15 different species.
 Proportion of genome encoding the Rst_gop_beta_cll system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### Rst_gop_beta_cll
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rst_gop_beta_cll/Rst_gop_beta_cll,Rst_gop_beta_cll__beta,0,V-plddts_93.90323.pdb
----
-::
+dataUrls:
+   - /rst_gop_beta_cll/Rst_gop_beta_cll.Rst_gop_beta_cll__cll.0.V.cif
+   - /rst_gop_beta_cll/Rst_gop_beta_cll.Rst_gop_beta_cll__gop.0.V.cif
+   - /rst_gop_beta_cll/Rst_gop_beta_cll.Rst_gop_beta_cll__beta.0.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rst_gop_beta_cll/Rst_gop_beta_cll,Rst_gop_beta_cll__cll,0,V-plddts_87.60729.pdb
----
-::
-
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rst_gop_beta_cll/Rst_gop_beta_cll,Rst_gop_beta_cll__gop,0,V-plddts_74.94876.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Rousset_2022[<a href='https://doi.org/10.1016/j.chom.2022.02.018'>Rousset et al., 2022</a>] --> Origin_0
@@ -85,13 +79,4 @@ end
     style Title3 fill:none,stroke:none,stroke-width:none
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
-## Relevant abstracts
-
-::relevant-abstracts
----
-items:
-    - doi: 10.1016/j.chom.2022.02.018
-
----
-::
 

content/3.defense-systems/rst_helicaseduf2290.md

@@ -49,25 +49,23 @@ The system was detected in 123 different species.
 Proportion of genome encoding the Rst_HelicaseDUF2290 system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### Rst_HelicaseDUF2290
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rst_helicaseduf2290/Rst_HelicaseDUF2290,Rst_HelicaseDUF2290__DUF2290,0,V-plddts_90.99466.pdb
----
-::
+dataUrls:
+   - /rst_helicaseduf2290/Rst_HelicaseDUF2290.Rst_HelicaseDUF2290__DUF2290.0.V.cif
+   - /rst_helicaseduf2290/Rst_HelicaseDUF2290.Rst_HelicaseDUF2290__Helicase.0.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rst_helicaseduf2290/Rst_HelicaseDUF2290,Rst_HelicaseDUF2290__Helicase,0,V-plddts_87.6023.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Rousset_2022[<a href='https://doi.org/10.1016/j.chom.2022.02.018'>Rousset et al., 2022</a>] --> Origin_0
@@ -92,3 +90,4 @@ end
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
 
+

content/3.defense-systems/rst_hydrolase-3tm.md

@@ -10,6 +10,8 @@ tableColumns:
     Activator: Unknown
     Effector: Unknown
     PFAM: PF13242, PF13419
+relevantAbstracts:
+    - doi: 10.1016/j.chom.2022.02.018
 ---
 
 # Rst_Hydrolase-3Tm
@@ -34,25 +36,23 @@ The system was detected in 34 different species.
 Proportion of genome encoding the Rst_Hydrolase-3Tm system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### Rst_Hydrolase-Tm
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rst_hydrolase-3tm/Rst_Hydrolase-Tm,Rst_Hydrolase-Tm__Hydrolase,0,V-plddts_94.5717.pdb
----
-::
+dataUrls:
+   - /rst_hydrolase-3tm/Rst_Hydrolase-Tm.Rst_Hydrolase-Tm__Hydrolase.0.V.cif
+   - /rst_hydrolase-3tm/Rst_Hydrolase-Tm.Rst_Hydrolase-Tm__Hydrolase-Tm.0.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rst_hydrolase-3tm/Rst_Hydrolase-Tm,Rst_Hydrolase-Tm__Hydrolase-Tm,0,V-plddts_87.29824.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Rousset_2022[<a href='https://doi.org/10.1016/j.chom.2022.02.018'>Rousset et al., 2022</a>] --> Origin_0
@@ -76,13 +76,4 @@ end
     style Title3 fill:none,stroke:none,stroke-width:none
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
-## Relevant abstracts
-
-::relevant-abstracts
----
-items:
-    - doi: 10.1016/j.chom.2022.02.018
-
----
-::
 

content/3.defense-systems/rst_rt-nitrilase-tm.md

@@ -10,6 +10,8 @@ tableColumns:
     Activator: Unknown
     Effector: Unknown
     PFAM: PF00078
+relevantAbstracts:
+    - doi: 10.1016/j.chom.2022.02.018
 ---
 
 # Rst_RT-nitrilase-Tm
@@ -34,25 +36,23 @@ The system was detected in 5 different species.
 Proportion of genome encoding the Rst_RT-nitrilase-Tm system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### Rst_RT-Tm
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rst_rt-nitrilase-tm/Rst_RT-Tm,Rst_RT-Tm__RT,0,V-plddts_91.31746.pdb
----
-::
+dataUrls:
+   - /rst_rt-nitrilase-tm/Rst_RT-Tm.Rst_RT-Tm__RT-Tm.0.V.cif
+   - /rst_rt-nitrilase-tm/Rst_RT-Tm.Rst_RT-Tm__RT.0.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /rst_rt-nitrilase-tm/Rst_RT-Tm,Rst_RT-Tm__RT-Tm,0,V-plddts_89.04275.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Rousset_2022[<a href='https://doi.org/10.1016/j.chom.2022.02.018'>Rousset et al., 2022</a>] --> Origin_0
@@ -76,13 +76,4 @@ end
     style Title3 fill:none,stroke:none,stroke-width:none
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
-## Relevant abstracts
-
-::relevant-abstracts
----
-items:
-    - doi: 10.1016/j.chom.2022.02.018
-
----
-::
 

content/3.defense-systems/rst_tir-nlr.md

@@ -49,18 +49,22 @@ The system was detected in 42 different species.
 Proportion of genome encoding the Rst_TIR-NLR system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### Rst_TIR-NLR
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /rst_tir-nlr/Rst_TIR-NLR__TIR-plddts_88.48123.pdb
+dataUrls:
+   - /rst_tir-nlr/Rst_TIR-NLR__TIR.cif
+
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Rousset_2022[<a href='https://doi.org/10.1016/j.chom.2022.02.018'>Rousset et al., 2022</a>] --> Origin_0
@@ -89,3 +93,4 @@ end
     style Title3 fill:none,stroke:none,stroke-width:none
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
+

content/3.defense-systems/sanata.md

@@ -48,25 +48,23 @@ The system was detected in 519 different species.
 Proportion of genome encoding the SanaTA system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### SanaTA
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /sanata/SanaTA,SanaTA_SanaA,0,V-plddts_86.02229.pdb
----
-::
+dataUrls:
+   - /sanata/SanaTA.SanaTA_SanaA.0.V.cif
+   - /sanata/SanaTA.SanaTA_SanaT.0.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /sanata/SanaTA,SanaTA_SanaT,0,V-plddts_94.5954.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Sberro_2013[<a href='https://doi.org/10.1016/j.molcel.2013.02.002'>Sberro et al., 2013</a>] --> Origin_0
@@ -92,3 +90,4 @@ end
 </mermaid>
 
 
+

content/3.defense-systems/sefir.md

@@ -52,18 +52,22 @@ The system was detected in 218 different species.
 Proportion of genome encoding the SEFIR system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### SEFIR
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /sefir/SEFIR__bSEFIR-plddts_89.61831.pdb
+dataUrls:
+   - /sefir/SEFIR__bSEFIR.cif
+
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Millman_2022[<a href='https://doi.org/10.1016/j.chom.2022.09.017'>Millman et al., 2022</a>] --> Origin_0
@@ -89,3 +93,4 @@ end
 </mermaid>
 
 
+

content/3.defense-systems/septu.md

@@ -10,6 +10,10 @@ tableColumns:
     Activator: Unknown
     Effector: Unknown
     PFAM: PF13175, PF13304, PF13476
+relevantAbstracts:
+    - doi: 10.1016/j.cell.2020.09.065
+    - doi: 10.1093/nar/gkab883
+    - doi: 10.1126/science.aar4120
 ---
 
 # Septu
@@ -34,41 +38,34 @@ The system was detected in 1112 different species.
 Proportion of genome encoding the Septu system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### Septu
+##### Example 1
 
-Example 1:
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /septu/Septu,Septu__PtuA,0,V-plddts_89.78955.pdb
----
-::
+dataUrls:
+   - /septu/Septu.Septu__PtuA.1.V.cif
+   - /septu/Septu.Septu__PtuB.1.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /septu/Septu,Septu__PtuB,0,V-plddts_95.05244.pdb
 ---
 ::
+##### Example 2
 
-Example 2:
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /septu/Septu,Septu__PtuA,0,V-plddts_89.78955.pdb
----
-::
+dataUrls:
+   - /septu/Septu.Septu__PtuB.1.V.cif
+   - /septu/Septu.Septu__PtuA.1.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /septu/Septu,Septu__PtuB,0,V-plddts_95.05244.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Doron_2018[<a href='https://doi.org/10.1126/science.aar4120'>Doron et al., 2018</a>] --> Origin_0
@@ -101,15 +98,4 @@ end
     style Title3 fill:none,stroke:none,stroke-width:none
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
-## Relevant abstracts
-
-::relevant-abstracts
----
-items:
-    - doi: 10.1016/j.cell.2020.09.065
-    - doi: 10.1093/nar/gkab883
-    - doi: 10.1126/science.aar4120
-
----
-::
 

content/3.defense-systems/shango.md

@@ -49,34 +49,24 @@ The system was detected in 446 different species.
 Proportion of genome encoding the Shango system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### Shango
+##### Example 1
 
-Example 1:
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /shango/Shango.Shango__SngC.0.V-plddts_90.0493.pdb
----
-::
+dataUrls:
+   - /shango/Shango.Shango__SngA.0.V.cif
+   - /shango/Shango.Shango__SngB.0.V.cif
+   - /shango/Shango.Shango__SngC.0.V.cif
 
-Example 2:
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /shango/Shango.Shango__SngC.0.V-plddts_90.0493.pdb
----
-::
-
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /shango/Shango,Shango__SngA,0,V-plddts_78.29927.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Millman_2022[<a href='https://doi.org/10.1016/j.chom.2022.09.017'>Millman et al., 2022</a>] --> Origin_0
@@ -103,3 +93,4 @@ end
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
 
+

content/3.defense-systems/shedu.md

@@ -53,18 +53,22 @@ The system was detected in 552 different species.
 Proportion of genome encoding the Shedu system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### Shedu
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /shedu/Shedu__SduA-plddts_87.27097.pdb
+dataUrls:
+   - /shedu/Shedu__SduA.cif
+
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Doron_2018[<a href='https://doi.org/10.1126/science.aar4120'>Doron et al., 2018</a>] --> Origin_0
@@ -92,3 +96,4 @@ end
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
 
+

content/3.defense-systems/shosta.md

@@ -48,25 +48,23 @@ The system was detected in 240 different species.
 Proportion of genome encoding the ShosTA system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### ShosTA
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /shosta/ShosTA,ShosTA__ShosA,0,V-plddts_93.0196.pdb
----
-::
+dataUrls:
+   - /shosta/ShosTA.ShosTA__ShosA.0.V.cif
+   - /shosta/ShosTA.ShosTA__ShosT.0.V.cif
 
-::molstar-pdbe-plugin
----
-height: 700
-dataUrl: /shosta/ShosTA,ShosTA__ShosT,0,V-plddts_91.38081.pdb
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Millman_2022[<a href='https://doi.org/10.1016/j.chom.2022.09.017'>Millman et al., 2022</a>] --> Origin_0
@@ -104,3 +102,4 @@ end
 </mermaid>
 
 
+

content/3.defense-systems/sofic.md

@@ -10,6 +10,8 @@ tableColumns:
     Activator: Unknown
     Effector: Unknown
     PFAM: PF02661, PF13784
+relevantAbstracts:
+    - doi: 10.1016/j.chom.2022.09.017
 ---
 
 # SoFIC
@@ -34,18 +36,22 @@ The system was detected in 1160 different species.
 Proportion of genome encoding the SoFIC system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### SoFic
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /sofic/SoFic__SoFic-plddts_95.70819.pdb
+dataUrls:
+   - /sofic/SoFic__SoFic.cif
+
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Millman_2022[<a href='https://doi.org/10.1016/j.chom.2022.09.017'>Millman et al., 2022</a>] --> Origin_0
@@ -69,13 +75,4 @@ end
     style Title3 fill:none,stroke:none,stroke-width:none
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
-## Relevant abstracts
-
-::relevant-abstracts
----
-items:
-    - doi: 10.1016/j.chom.2022.09.017
-
----
-::
 

content/3.defense-systems/spbk.md

@@ -10,6 +10,8 @@ tableColumns:
     Activator: Unknown
     Effector: Unknown
     PFAM: PF13676
+relevantAbstracts:
+    - doi: 10.1371/journal.pgen.1010065
 ---
 
 # SpbK
@@ -34,18 +36,22 @@ The system was detected in 90 different species.
 Proportion of genome encoding the SpbK system for the 14 phyla with more than 50 genomes in the RefSeq database.
 
 
-## Structure
 
+## Structure
 ### SpbK
+##### Example 1
 
 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /spbk/SpbK__SpbK-plddts_78.5012.pdb
+dataUrls:
+   - /spbk/SpbK__SpbK.cif
+
 ---
 ::
 
 ## Experimental validation
+
 <mermaid>
 graph LR;
     Johnson_2022[<a href='https://doi.org/10.1371/journal.pgen.1010065'>Johnson et al., 2022</a>] --> Origin_0
@@ -69,13 +75,4 @@ end
     style Title3 fill:none,stroke:none,stroke-width:none
     style Title4 fill:none,stroke:none,stroke-width:none
 </mermaid>
-## Relevant abstracts
-
-::relevant-abstracts
----
-items:
-    - doi: 10.1371/journal.pgen.1010065
-
----
-::