3gqj: Difference between revisions

Latest revision as of 09:56, 21 February 2024

Crystal structure of Cell Inhibiting Factor (Cif) from Photorhabdus luminescens

Structural highlights

3gqj is a 1 chain structure with sequence from Photorhabdus laumondii subsp. laumondii. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.85Å
Ligands:	GOL, SO4
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CIF_PHOLL Protein-glutamine deamidase effector that inhibits the host cell cycle and other key cellular processes such as the actin network and programmed-cell death (PubMed:19308257, PubMed:19225106, PubMed:20870031). Acts by mediating the side chain deamidation of 'Gln-40' of host NEDD8, converting it to glutamate, thereby abolishing the activity of cullin-RING-based E3 ubiquitin-protein ligase complexes (CRL complexes) (By similarity). Inactivation of CRL complexes prevents ubiquitination and subsequent degradation of the cyclin-dependent kinase inhibitors CDKN1A/p21 and CDKN1B/p27, leading to G1 and G2 cell cycle arrests in host cells (PubMed:19308257). Deamidation of 'Gln-40' of host NEDD8 also triggers macrophage-specific programmed cell death (By similarity). Also able to catalyze deamidation of 'Gln-40' of host ubiquitin in vitro; however, NEDD8 constitutes the preferred substrate in vivo (By similarity).[UniProtKB:Q63KH5]^[1] ^[2] ^[3]

References

↑ Yao Q, Cui J, Zhu Y, Wang G, Hu L, Long C, Cao R, Liu X, Huang N, Chen S, Liu L, Shao F. A bacterial type III effector family uses the papain-like hydrolytic activity to arrest the host cell cycle. Proc Natl Acad Sci U S A. 2009 Mar 10;106(10):3716-21. Epub 2009 Feb 18. PMID:19225106
↑ Jubelin G, Chavez CV, Taieb F, Banfield MJ, Samba-Louaka A, Nobe R, Nougayrede JP, Zumbihl R, Givaudan A, Escoubas JM, Oswald E. Cycle inhibiting factors (CIFs) are a growing family of functional cyclomodulins present in invertebrate and mammal bacterial pathogens. PLoS One. 2009;4(3):e4855. doi: 10.1371/journal.pone.0004855. Epub 2009 Mar 24. PMID:19308257 doi:https://dx.doi.org/10.1371/journal.pone.0004855
↑ Chavez CV, Jubelin G, Courties G, Gomard A, Ginibre N, Pages S, Taieb F, Girard PA, Oswald E, Givaudan A, Zumbihl R, Escoubas JM. The cyclomodulin Cif of Photorhabdus luminescens inhibits insect cell proliferation and triggers host cell death by apoptosis. Microbes Infect. 2010 Dec;12(14-15):1208-18. doi: 10.1016/j.micinf.2010.09.006., Epub 2010 Sep 24. PMID:20870031 doi:https://dx.doi.org/10.1016/j.micinf.2010.09.006

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OCA

[1] Yao Q, Cui J, Zhu Y, Wang G, Hu L, Long C, Cao R, Liu X, Huang N, Chen S, Liu L, Shao F. A bacterial type III effector family uses the papain-like hydrolytic activity to arrest the host cell cycle. Proc Natl Acad Sci U S A. 2009 Mar 10;106(10):3716-21. Epub 2009 Feb 18. PMID:19225106

[2] Jubelin G, Chavez CV, Taieb F, Banfield MJ, Samba-Louaka A, Nobe R, Nougayrede JP, Zumbihl R, Givaudan A, Escoubas JM, Oswald E. Cycle inhibiting factors (CIFs) are a growing family of functional cyclomodulins present in invertebrate and mammal bacterial pathogens. PLoS One. 2009;4(3):e4855. doi: 10.1371/journal.pone.0004855. Epub 2009 Mar 24. PMID:19308257 doi:https://dx.doi.org/10.1371/journal.pone.0004855

[3] Chavez CV, Jubelin G, Courties G, Gomard A, Ginibre N, Pages S, Taieb F, Girard PA, Oswald E, Givaudan A, Zumbihl R, Escoubas JM. The cyclomodulin Cif of Photorhabdus luminescens inhibits insect cell proliferation and triggers host cell death by apoptosis. Microbes Infect. 2010 Dec;12(14-15):1208-18. doi: 10.1016/j.micinf.2010.09.006., Epub 2010 Sep 24. PMID:20870031 doi:https://dx.doi.org/10.1016/j.micinf.2010.09.006

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[2]

[3]

@@ Line 1: / Line 1: @@
-{{Seed}}
-[[Image:3gqj.jpg|left|200px]]
-<!--
+==Crystal structure of Cell Inhibiting Factor (Cif) from Photorhabdus luminescens==
-The line below this paragraph, containing "STRUCTURE_3gqj", creates the "Structure Box" on the page.
+<StructureSection load='3gqj' size='340' side='right'caption='[[3gqj]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[3gqj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Photorhabdus_laumondii_subsp._laumondii Photorhabdus laumondii subsp. laumondii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GQJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GQJ FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.85&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_3gqj|  PDB=3gqj  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3gqj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gqj OCA], [https://pdbe.org/3gqj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gqj RCSB], [https://www.ebi.ac.uk/pdbsum/3gqj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gqj ProSAT]</span></td></tr>
+</table>
-===Crystal structure of Cell Inhibiting Factor (Cif) from Photorhabdus luminescens===
+== Function ==
+[https://www.uniprot.org/uniprot/CIF_PHOLL CIF_PHOLL] Protein-glutamine deamidase effector that inhibits the host cell cycle and other key cellular processes such as the actin network and programmed-cell death (PubMed:19308257, PubMed:19225106, PubMed:20870031). Acts by mediating the side chain deamidation of 'Gln-40' of host NEDD8, converting it to glutamate, thereby abolishing the activity of cullin-RING-based E3 ubiquitin-protein ligase complexes (CRL complexes) (By similarity). Inactivation of CRL complexes prevents ubiquitination and subsequent degradation of the cyclin-dependent kinase inhibitors CDKN1A/p21 and CDKN1B/p27, leading to G1 and G2 cell cycle arrests in host cells (PubMed:19308257). Deamidation of 'Gln-40' of host NEDD8 also triggers macrophage-specific programmed cell death (By similarity). Also able to catalyze deamidation of 'Gln-40' of host ubiquitin in vitro; however, NEDD8 constitutes the preferred substrate in vivo (By similarity).[UniProtKB:Q63KH5]<ref>PMID:19225106</ref> <ref>PMID:19308257</ref> <ref>PMID:20870031</ref>
+== References ==
-<!--
+<references/>
-The line below this paragraph, {{ABSTRACT_PUBMED_19440549}}, adds the Publication Abstract to the page
+__TOC__
-(as it appears on PubMed at http://www.pubmed.gov), where 19440549 is the PubMed ID number.
+</StructureSection>
--->
+[[Category: Large Structures]]
-{{ABSTRACT_PUBMED_19440549}}
+[[Category: Photorhabdus laumondii subsp. laumondii]]
+[[Category: Banfield MJ]]
-==About this Structure==
+[[Category: Crow A]]
-GQJ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Photorhabdus_luminescens_subsp._laumondii Photorhabdus luminescens subsp. laumondii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GQJ OCA].
-==Reference==
-<ref group="xtra">PMID:19440549</ref><references group="xtra"/>
-[[Category: Photorhabdus luminescens subsp. laumondii]]
-[[Category: Banfield, M J.]]
-[[Category: Crow, A.]]
-[[Category: Cell inhibiting factor]]
-[[Category: Cif]]
-[[Category: Protease-like]]
-[[Category: Unknown function]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jun  4 07:25:44 2009''

3gqj: Difference between revisions

Latest revision as of 09:56, 21 February 2024

Crystal structure of Cell Inhibiting Factor (Cif) from Photorhabdus luminescens

Structural highlights

Function

References

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