5fy4: Difference between revisions

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'''Unreleased structure'''


The entry 5fy4 is ON HOLD  until Paper Publication
==Crystal structure of the catalytic domain of human JARID1B in complex with succinate==
<StructureSection load='5fy4' size='340' side='right'caption='[[5fy4]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5fy4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FY4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5FY4 FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FUM:FUMARIC+ACID'>FUM</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5fy4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fy4 OCA], [https://pdbe.org/5fy4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5fy4 RCSB], [https://www.ebi.ac.uk/pdbsum/5fy4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5fy4 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/KDM5B_HUMAN KDM5B_HUMAN] Histone demethylase that demethylates 'Lys-4' of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-9' or H3 'Lys-27'. Demethylates trimethylated, dimethylated and monomethylated H3 'Lys-4'. Acts as a transcriptional corepressor for FOXG1B and PAX9. Favors the proliferation of breast cancer cells by repressing tumor suppressor genes such as BRCA1 and HOXA5. In contrast, may act as a tumor suppressor for melanoma.<ref>PMID:12657635</ref> <ref>PMID:16645588</ref> <ref>PMID:17320161</ref> <ref>PMID:17363312</ref>


Authors: Nowak, R., Srikannathasan, V., Johansson, C., Gileadi, C., Kupinska, K., Strain-Damerell, C., Szykowska, A., Von Delft, F., Burgess-Brown, N.A., Arrowsmith, C.H., Bountra, C., Edwards, A.M., Oppermann, U.
==See Also==
 
*[[Jumonji domain-containing protein 3D structures|Jumonji domain-containing protein 3D structures]]
Description: Crystal structure of the catalytic domain of human JARID1B in complex with succinate
*[[Lysine-specific histone demethylase 3D structures|Lysine-specific histone demethylase 3D structures]]
[[Category: Unreleased Structures]]
== References ==
[[Category: Nowak, R]]
<references/>
[[Category: Arrowsmith, C.H]]
__TOC__
[[Category: Gileadi, C]]
</StructureSection>
[[Category: Oppermann, U]]
[[Category: Homo sapiens]]
[[Category: Szykowska, A]]
[[Category: Large Structures]]
[[Category: Burgess-Brown, N.A]]
[[Category: Arrowsmith CH]]
[[Category: Von Delft, F]]
[[Category: Bountra C]]
[[Category: Edwards, A.M]]
[[Category: Burgess-Brown NA]]
[[Category: Johansson, C]]
[[Category: Edwards AM]]
[[Category: Strain-Damerell, C]]
[[Category: Gileadi C]]
[[Category: Srikannathasan, V]]
[[Category: Johansson C]]
[[Category: Bountra, C]]
[[Category: Kupinska K]]
[[Category: Kupinska, K]]
[[Category: Nowak R]]
[[Category: Oppermann U]]
[[Category: Srikannathasan V]]
[[Category: Strain-Damerell C]]
[[Category: Szykowska A]]
[[Category: Von Delft F]]

Latest revision as of 16:31, 26 July 2023

Crystal structure of the catalytic domain of human JARID1B in complex with succinateCrystal structure of the catalytic domain of human JARID1B in complex with succinate

Structural highlights

5fy4 is a 1 chain structure with sequence from Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.1Å
Ligands:, , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

KDM5B_HUMAN Histone demethylase that demethylates 'Lys-4' of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-9' or H3 'Lys-27'. Demethylates trimethylated, dimethylated and monomethylated H3 'Lys-4'. Acts as a transcriptional corepressor for FOXG1B and PAX9. Favors the proliferation of breast cancer cells by repressing tumor suppressor genes such as BRCA1 and HOXA5. In contrast, may act as a tumor suppressor for melanoma.[1] [2] [3] [4]

See Also

References

  1. ↑ Tan K, Shaw AL, Madsen B, Jensen K, Taylor-Papadimitriou J, Freemont PS. Human PLU-1 Has transcriptional repression properties and interacts with the developmental transcription factors BF-1 and PAX9. J Biol Chem. 2003 Jun 6;278(23):20507-13. Epub 2003 Mar 25. PMID:12657635 doi:http://dx.doi.org/10.1074/jbc.M301994200
  2. ↑ Roesch A, Becker B, Schneider-Brachert W, Hagen I, Landthaler M, Vogt T. Re-expression of the retinoblastoma-binding protein 2-homolog 1 reveals tumor-suppressive functions in highly metastatic melanoma cells. J Invest Dermatol. 2006 Aug;126(8):1850-9. Epub 2006 Apr 27. PMID:16645588 doi:http://dx.doi.org/10.1038/sj.jid.5700324
  3. ↑ Christensen J, Agger K, Cloos PA, Pasini D, Rose S, Sennels L, Rappsilber J, Hansen KH, Salcini AE, Helin K. RBP2 belongs to a family of demethylases, specific for tri-and dimethylated lysine 4 on histone 3. Cell. 2007 Mar 23;128(6):1063-76. Epub 2007 Feb 22. PMID:17320161 doi:S0092-8674(07)00182-1
  4. ↑ Yamane K, Tateishi K, Klose RJ, Fang J, Fabrizio LA, Erdjument-Bromage H, Taylor-Papadimitriou J, Tempst P, Zhang Y. PLU-1 is an H3K4 demethylase involved in transcriptional repression and breast cancer cell proliferation. Mol Cell. 2007 Mar 23;25(6):801-12. Epub 2007 Mar 15. PMID:17363312 doi:http://dx.doi.org/S1097-2765(07)00146-3

5fy4, resolution 2.10Å

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