ftesson
--- a/content/3.defense-systems/abir.md

+ 27

− 25
+++ b/content/3.defense-systems/abir.md

+ 27

− 25
 @@ -10,9 +10,29 @@ tableColumns:
    Activator: Unknown
    Effector: Unknown
    PFAM: PF00176, PF00271, PF04545, PF04851, PF13091
+contributors: 
+  - Florian Tesson
+relevantAbstracts:
+  - doi: 10.1023/A:1002027321171
+  - doi: 10.1016/j.mib.2005.06.006
+  - doi: 10.1128/aem.66.6.2647-2651.2000
 ---

 # AbiR
+
+## Description
+AbiR is a defense system discovered in 2000 :ref{doi=10.1128/aem.66.6.2647-2651.2000}.
+
+AbiR is one of the so-called "Abi" systems for "Abortive infection" discovered in the 90's in research related to the dairy industry :ref{doi=10.1016/j.mib.2005.06.006}. AbiR is classified as abortive infection in :ref{doi=10.1016/j.mib.2023.102312}.
+
+AbiR is composed of 3 genes: AbiRa, AbiRb, AbiRc.
+AbiRa encodes a sigma70 RNA polymerase subunit. AbiRb as homology with ParB nuclease domain according to HHpred.
+AbiRc has two different domains: a N_terminal PLD domain (PF13091) and at the C term an SNF2 DNA dependant ATPase.
+
+## Molecular mechanism
+
+As far as we are aware, the molecular mechanism is unknown.
+
 ## Example of genomic structure

 The AbiR is composed of 3 proteins: AbiRa, AbiRb and AbiRc.
 @@ -34,32 +54,24 @@ The system was detected in 28 different species.
 Proportion of genome encoding the AbiR system for the 14 phyla with more than 50 genomes in the RefSeq database.


-## Structure

+## Structure
 ### AbiR
+##### Example 1

 ::molstar-pdbe-plugin
 ---
 height: 700
-dataUrl: /abir/AbiR,AbiR__AbiRa,0,V-plddts_88.45598.pdb
---
-::
+dataUrls:
+   - /abir/AbiR.AbiR__AbiRc.0.V.cif
+   - /abir/AbiR.AbiR__AbiRb.0.V.cif
+   - /abir/AbiR.AbiR__AbiRa.0.V.cif

-::molstar-pdbe-plugin
---
-height: 700
-dataUrl: /abir/AbiR,AbiR__AbiRb,0,V-plddts_92.82829.pdb
---
-::
-
-::molstar-pdbe-plugin
---
-height: 700
-dataUrl: /abir/AbiR,AbiR__AbiRc,0,V-plddts_86.60767.pdb
 ---
 ::

 ## Experimental validation
+
 <mermaid>
 graph LR;
    Chopin_2005[<a href='https://doi.org/10.1016/j.mib.2005.06.006'>Chopin et al., 2005</a>] --> Origin_0
 @@ -84,14 +96,4 @@ 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: 10.1023/A:1002027321171
-    - doi: 10.1016/j.mib.2005.06.006
-
---
-::