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bacteria:t3e:t3e [2024/03/16 11:29] – [Type 3 effectors] rkoebnikbacteria:t3e:t3e [2025/04/24 09:27] (current) – [Type III effectors from //Xanthomonas//] rkoebnik
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-====== Type 3 effectors ======+====== Type III effectors from //Xanthomonas// ======
  
 [[http://www.biopred.net/xanthomonas/|Link to the original Xanthomonas //Resource @ xanthomonas.org]] [[http://www.biopred.net/xanthomonas/|Link to the original Xanthomonas //Resource @ xanthomonas.org]]
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 [[:bacteria:t3e:effectors|Multi-FASTA-formatted list of type III effectors from Xanthomonas]] [[:bacteria:t3e:effectors|Multi-FASTA-formatted list of type III effectors from Xanthomonas]]
  
-[[https://www.ncbi.nlm.nih.gov/protein/WP_011037255.1, WP_039418336.1, WP_011052943.1, WP_039417318.1, WP_011347616.1, WP_041183113.1, WP_228949438.1, WP_011345998.1, WP_011347479.1, WP_011052114.1, WP_244170787.1, WP_260607984.1, WP_011346095.1, WP_011348008.1, WP_039005675.1, WP_011346758.1, WP_011038360.1, WP_084217840.1, WP_011345706.1, WP_010377341.1, WP_011346406.1, WP_010367684.1, WP_011347382.1, WP_074052319.1, WP_011346137.1, WP_008572727.1, WP_228442257.1, WP_027703763.1, WP_218498620.1, WP_011346113.1, WP_011348010.1, WP_011346566.1, WP_104613784.1, WP_011349176.1, WP_011260681.1, WP_039418869.1, WP_199285673.1, WP_011408937.1, WP_011409498.1, WP_228329674.1, WP_011346212.1, WP_011408080.1, WP_011259177.1, WP_039421390.1, WP_041855088.1, WP_011409110.1, WP_011269629.1, WP_011409710.1, WP_011050288.1, WP_008577605.1, WP_227479740.1, WP_272820829.1, WP_007970248.1, WP_011037263.1, WP_011052119.1, WP_014504815.1, WP_269466020.1, WP_274360846.1, WP_012437264.1, WP_012438997.1, WP_162267513.1, WP_236504155.1, WP_233366621.1, APO95022.1, WP_229015407.1, AEL06363.1, WP_041855031.1, WP_065628638.1, WP_011269951.1, WP_011348129.1, WP_041854960.1, WP_104549896.1, WP_227478587.1, WP_251761698.1, WP_145953988.1?report=fasta|List of type III effectors in Xanthomonas]] (for download from NCBI)+[[https://www.ncbi.nlm.nih.gov/protein/WP_011037255.1, WP_039418336.1, WP_011052943.1, WP_039417318.1, WP_011347616.1, WP_041183113.1, WP_228949438.1, WP_011345998.1, WP_011347479.1, WP_011052114.1, WP_244170787.1, WP_260607984.1, WP_011346095.1, WP_011348008.1, WP_039005675.1, WP_011346758.1, WP_011038360.1, WP_084217840.1, WP_011345706.1, WP_010377341.1, WP_011346406.1, WP_010367684.1, WP_011347382.1, WP_074052319.1, WP_011346137.1, WP_008572727.1, WP_228442257.1, WP_196765268.1, WP_027703763.1, WP_218498620.1, WP_011346113.1, WP_011348010.1, WP_011346566.1, WP_104613784.1, WP_011349176.1, WP_011260681.1, WP_039418869.1, WP_199285673.1, WP_011408937.1, WP_011409498.1, WP_228329674.1, WP_011346212.1, WP_011408080.1, WP_011259177.1, WP_039421390.1, WP_041855088.1, WP_011409110.1, WP_011269629.1, WP_011409710.1, WP_011050288.1, WP_008577605.1, WP_227479740.1, WP_272820829.1, WP_007970248.1, WP_011037263.1, WP_011052119.1, WP_014504815.1, WP_269466020.1, WP_274360846.1, WP_012437264.1, WP_012438997.1, WP_162267513.1, WP_236504155.1, WP_233366621.1, APO95022.1, WP_229015407.1, AEL06363.1, WP_041855031.1, WP_065628638.1, WP_011269951.1, WP_011348129.1, WP_041854960.1, WP_104549896.1, WP_227478587.1, WP_251761698.1, WP_145953988.1,WP_212580660.1?report=fasta|List of type III effectors in Xanthomonas]] (for download from NCBI)
  
 [[http://www.pseudomonas-syringae.org|Pseudomonas–Plant Interaction website]] (Lindeberg //et al.//, 2005) [[http://www.pseudomonas-syringae.org|Pseudomonas–Plant Interaction website]] (Lindeberg //et al.//, 2005)
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 [[https://iant.toulouse.inra.fr/T3E|RalstoT3Edb]] (Peeters //et al.//, 2013; Sabbagh //et al.//, 2019) [[https://iant.toulouse.inra.fr/T3E|RalstoT3Edb]] (Peeters //et al.//, 2013; Sabbagh //et al.//, 2019)
  
-[[:bacteria:t3e:effector_reviews|Review papers on type 3 effectors]]+[[:bacteria:t3e:effector_reviews|Review papers on type III effectors]]
  
-[[:bacteria:t3e:software|Software, databases and websites for type 3 effectors]]+[[:bacteria:t3e:software|Software, databases and websites for type III effectors]]
  
 [[:bacteria:t3e:t3e_template|Empty template]] - [[:bacteria:t3e:xopau|Example 1: XopAU]] - [[:bacteria:t3e:xopb|Example 2: XopB]] [[:bacteria:t3e:t3e_template|Empty template]] - [[:bacteria:t3e:xopau|Example 1: XopAU]] - [[:bacteria:t3e:xopb|Example 2: XopB]]
  
-===== Xanthomonas type 3 effectors =====+===== Xanthomonas type III effectors ===== 
 + 
 +<datatables page-length="100">
  
 ^Class ^Family ^Synonyms ^Related proteins ^RefSeq ID (GenBank ID) ^Function / Features | ^Class ^Family ^Synonyms ^Related proteins ^RefSeq ID (GenBank ID) ^Function / Features |
Line 47: Line 49:
 |XopJ |[[:bacteria:t3e:xopj4|XopJ4]] |AvrXv4 |HopZ1, RipP1 (formerly PopP1) |[[https://www.ncbi.nlm.nih.gov/protein/WP_008572727.1|WP_008572727.1]] |[[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR005083/|Ser/Thr acetyltransferase]] | |XopJ |[[:bacteria:t3e:xopj4|XopJ4]] |AvrXv4 |HopZ1, RipP1 (formerly PopP1) |[[https://www.ncbi.nlm.nih.gov/protein/WP_008572727.1|WP_008572727.1]] |[[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR005083/|Ser/Thr acetyltransferase]] |
 |XopJ |[[:bacteria:t3e:xopj5|XopJ5]] |AvrXccB |HopZ1, RipK, RipP1 |[[https://www.ncbi.nlm.nih.gov/protein/WP_228442257.1|WP_228442257.1]] |[[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR005083/|Ser/Thr acetyltransferase]] | |XopJ |[[:bacteria:t3e:xopj5|XopJ5]] |AvrXccB |HopZ1, RipK, RipP1 |[[https://www.ncbi.nlm.nih.gov/protein/WP_228442257.1|WP_228442257.1]] |[[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR005083/|Ser/Thr acetyltransferase]] |
-|XopJ |[[:bacteria:t3e:xopj6|XopJ6]] |  |  |  |Unpublished, personal communication |+|XopJ |[[:bacteria:t3e:xopj6|XopJ6]] |  |RipP2 (formerly PopP2) |[[https://www.ncbi.nlm.nih.gov/protein/WP_196765268.1|WP_196765268.1]] |[[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR005083/|Ser/Thr acetyltransferase]] |
 |XopK |[[:bacteria:t3e:xopk|XopK]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_027703763.1|WP_027703763.1]] |  | |XopK |[[:bacteria:t3e:xopk|XopK]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_027703763.1|WP_027703763.1]] |  |
 |XopL |[[:bacteria:t3e:xopl|XopL]] |  |RipAC (formerly PopC) |[[https://www.ncbi.nlm.nih.gov/protein/WP_218498620.1|WP_218498620.1]] |[[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR003591/|LRR motif]]; [[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR001611/|LRR domain]] | |XopL |[[:bacteria:t3e:xopl|XopL]] |  |RipAC (formerly PopC) |[[https://www.ncbi.nlm.nih.gov/protein/WP_218498620.1|WP_218498620.1]] |[[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR003591/|LRR motif]]; [[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR001611/|LRR domain]] |
Line 60: Line 62:
 |XopU |[[:bacteria:t3e:xopu|XopU]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_011408937.1|WP_011408937.1]] |  | |XopU |[[:bacteria:t3e:xopu|XopU]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_011408937.1|WP_011408937.1]] |  |
 |XopV |[[:bacteria:t3e:xopv|XopV]] |  |RipAD |[[https://www.ncbi.nlm.nih.gov/protein/WP_011409498.1|WP_011409498.1]] |  | |XopV |[[:bacteria:t3e:xopv|XopV]] |  |RipAD |[[https://www.ncbi.nlm.nih.gov/protein/WP_011409498.1|WP_011409498.1]] |  |
-|XopW |[[:bacteria:t3e:xopw|XopW]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_228329674.1|WP_228329674.1]] |  |+|XopW |[[:bacteria:t3e:xopw|XopW]] |  |RS_T3E_Hyp14 |[[https://www.ncbi.nlm.nih.gov/protein/WP_228329674.1|WP_228329674.1]] |  |
 |XopX |[[:bacteria:t3e:xopx|XopX]] |  |HopAE1 (HolPsyAE), RipBI |[[https://www.ncbi.nlm.nih.gov/protein/WP_011346212.1|WP_011346212.1]] |  | |XopX |[[:bacteria:t3e:xopx|XopX]] |  |HopAE1 (HolPsyAE), RipBI |[[https://www.ncbi.nlm.nih.gov/protein/WP_011346212.1|WP_011346212.1]] |  |
 |XopY |[[:bacteria:t3e:xopy|XopY]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_011408080.1|WP_011408080.1]] |  | |XopY |[[:bacteria:t3e:xopy|XopY]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_011408080.1|WP_011408080.1]] |  |
Line 81: Line 83:
 |XopAL |[[:bacteria:t3e:xopal2|XopAL2]] |  |Eop3, RS_T3E_Hyp14 |[[https://www.ncbi.nlm.nih.gov/protein/WP_012437264.1|WP_012437264.1]] |  | |XopAL |[[:bacteria:t3e:xopal2|XopAL2]] |  |Eop3, RS_T3E_Hyp14 |[[https://www.ncbi.nlm.nih.gov/protein/WP_012437264.1|WP_012437264.1]] |  |
 |XopAM |[[:bacteria:t3e:xopam|XopAM]] |  |HopR1, RipR |[[https://www.ncbi.nlm.nih.gov/protein/WP_012438997.1|WP_012438997.1]] |AvrE-family effector | |XopAM |[[:bacteria:t3e:xopam|XopAM]] |  |HopR1, RipR |[[https://www.ncbi.nlm.nih.gov/protein/WP_012438997.1|WP_012438997.1]] |AvrE-family effector |
-|XopAN |[[:bacteria:t3e:xopan|XopAN]] |  |  |  |  |+|XopAN |[[:bacteria:t3e:xopan|XopAN]] |  |  |  |Replaced by XopAV |
 |XopAO |[[:bacteria:t3e:xopao|XopAO]] |  |AvrRpm1, RipBA |[[https://www.ncbi.nlm.nih.gov/protein/WP_162267513.1|WP_162267513.1]] |  | |XopAO |[[:bacteria:t3e:xopao|XopAO]] |  |AvrRpm1, RipBA |[[https://www.ncbi.nlm.nih.gov/protein/WP_162267513.1|WP_162267513.1]] |  |
 |XopAP |[[:bacteria:t3e:xopap|XopAP]] |  |RipAL |[[https://www.ncbi.nlm.nih.gov/protein/WP_236504155.1|WP_236504155.1]] |[[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR029058/|α/β hydrolase fold]]; [[https://www.ebi.ac.uk/interpro/entry/pfam/PF01764/|Class-3 lipase]] | |XopAP |[[:bacteria:t3e:xopap|XopAP]] |  |RipAL |[[https://www.ncbi.nlm.nih.gov/protein/WP_236504155.1|WP_236504155.1]] |[[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR029058/|α/β hydrolase fold]]; [[https://www.ebi.ac.uk/interpro/entry/pfam/PF01764/|Class-3 lipase]] |
Line 93: Line 95:
 |XopAW |[[:bacteria:t3e:xopaw|XopAW]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_011348129.1|WP_011348129.1]] |Calcium-binding protein; [[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR002048/|EF-hand domain]]; [[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR018247/|Calcium-binding site]] | |XopAW |[[:bacteria:t3e:xopaw|XopAW]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_011348129.1|WP_011348129.1]] |Calcium-binding protein; [[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR002048/|EF-hand domain]]; [[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR018247/|Calcium-binding site]] |
 |XopAX |[[:bacteria:t3e:xopax|XopAX]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_041854960.1|WP_041854960.1]] |  | |XopAX |[[:bacteria:t3e:xopax|XopAX]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_041854960.1|WP_041854960.1]] |  |
-|XopAY |[[:bacteria:t3e:xopay|XopAY]] |  |  |  |  |+|XopAY |[[:bacteria:t3e:xopay|XopAY]] |  |  |  |Replaced by XopAV |
 |XopAZ |[[:bacteria:t3e:xopaz|XopAZ]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_104549896.1|WP_104549896.1]] |SlpA superfamily; [[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR001179/|FKBP-type peptidyl-prolyl cis-trans isomerase]] | |XopAZ |[[:bacteria:t3e:xopaz|XopAZ]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_104549896.1|WP_104549896.1]] |SlpA superfamily; [[https://www.ebi.ac.uk/interpro/entry/InterPro/IPR001179/|FKBP-type peptidyl-prolyl cis-trans isomerase]] |
 |XopBA |[[:bacteria:t3e:xopba|XopBA]] |  |HopW1, RipBP |[[https://www.ncbi.nlm.nih.gov/protein/WP_227478587.1|WP_227478587.1]] |  | |XopBA |[[:bacteria:t3e:xopba|XopBA]] |  |HopW1, RipBP |[[https://www.ncbi.nlm.nih.gov/protein/WP_227478587.1|WP_227478587.1]] |  |
Line 102: Line 104:
 |XopBF |  |  |  |  |= XopAV class | |XopBF |  |  |  |  |= XopAV class |
 |XopBG |[[:bacteria:t3e:xopbg|XopBG]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_145953988.1|WP_145953988.1]] |  | |XopBG |[[:bacteria:t3e:xopbg|XopBG]] |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_145953988.1|WP_145953988.1]] |  |
 +|XopBH |XopBH |  |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_212580660.1|WP_212580660.1]] |Reserved. Please contact Ralf Koebnik. |
  
-===== Avirulence or type 3-secreted proteins that are not considered effectors in a narrow sense =====+</datatables> 
 + 
 +===== Avirulence or type III-secreted proteins that are not considered effectors in a narrow sense ===== 
 + 
 +<datatables page-length="50">
  
 ^Name ^Synonyms ^Related proteins ^RefSeq ID (GenBank ID) ^Function / Features ^Reference | ^Name ^Synonyms ^Related proteins ^RefSeq ID (GenBank ID) ^Function / Features ^Reference |
Line 115: Line 122:
 |HrpW |  |RipW (formerly PopW) |[[https://www.ncbi.nlm.nih.gov/protein/WP_005926112.1|WP_005926112.1]] |[[https://www.ebi.ac.uk/interpro/entry/pfam/PF03211|Pectate lyase]], perhaps not a T3E |Charkowski //et al.//, 1998; Li //et al.//, 2010  | |HrpW |  |RipW (formerly PopW) |[[https://www.ncbi.nlm.nih.gov/protein/WP_005926112.1|WP_005926112.1]] |[[https://www.ebi.ac.uk/interpro/entry/pfam/PF03211|Pectate lyase]], perhaps not a T3E |Charkowski //et al.//, 1998; Li //et al.//, 2010  |
 |XopA |Hpa1/HpaG |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_011346111.1|WP_011346111.1]] |Harpin, perhaps not a T3E |Zhu //et al.//, 2000; Kim //et al.//, 2004; Sgro //et al.//, 2012; Wang //et al.//, 2018  | |XopA |Hpa1/HpaG |  |[[https://www.ncbi.nlm.nih.gov/protein/WP_011346111.1|WP_011346111.1]] |Harpin, perhaps not a T3E |Zhu //et al.//, 2000; Kim //et al.//, 2004; Sgro //et al.//, 2012; Wang //et al.//, 2018  |
 +
 +</datatables>
  
 ===== References ===== ===== References =====
bacteria/t3e/t3e.1710588591.txt.gz · Last modified: 2024/03/16 11:29 by rkoebnik

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