4d6s: Difference between revisions

Line 1:

'''~~Unreleased structure~~'''

==crystal structure of human JMJD2D in complex with N-OXALYLGLYCINE and bound 5,6-Dimethylbenzimidazole==

~~The entry~~ 4d6s is ~~ON HOLD~~

== Structural highlights ==

<table><tr><td colspan='2'>[[4d6s]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D6S OCA]. For a guided tour on the structure components use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D6S FirstGlance].

~~Authors~~: ~~Krojer~~, T., ~~Vollmar~~, M., ~~Bradley~~, A., ~~Crawley~~, L., ~~Szykowska~~, A., ~~Burgess~~-~~Brown~~, N., ~~Gileadi~~, C., ~~Johansson~~, C., ~~Oppermann, U~~., Bountra, C., ~~Arrowsmith~~, ~~C.H.~~, Edwards, A., ~~von Delft~~, F.

</td></tr><tr id='ligand'><td class="sblockLbl">[[Ligand|Ligands:]]</td><td class="sblockDat"><scene name='pdbligand=DMD:5,6-DIMETHYLBENZIMIDAZOLE'>DMD</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=OGA:N-OXALYLGLYCINE'>OGA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>

<tr id='related'><td class="sblockLbl">[[Related_structure|Related:]]</td><td class="sblockDat">[[4d6q|4d6q]], [[4d6r|4d6r]]</td></tr>

~~Description~~: ~~crystal structure of human JMJD2D in complex with N-OXALYLGLYCINE and bound 5~~,~~6-Dimethylbenzimidazole~~

<tr id='resources'><td class="sblockLbl">Resources:</td><td class="sblockDat">[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4d6s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d6s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4d6s RCSB], [http://www.ebi.ac.uk/pdbsum/4d6s PDBsum]</td></tr>

</table>

== Function ==

[[http://www.uniprot.org/uniprot/KDM4D_HUMAN KDM4D_HUMAN]] Histone demethylase that specifically demethylates 'Lys-9' of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27', H3 'Lys-36' nor H4 'Lys-20'. Demethylates both di- and trimethylated H3 'Lys-9' residue, while it has no activity on monomethylated residues. Demethylation of Lys residue generates formaldehyde and succinate.<ref>PMID:16603238</ref>

== References ==

__TOC__

</StructureSection>

[[Category: Arrowsmith, C H]]

[[Category: Bountra, C]]

[[Category: Bradley, A]]

[[Category: Burgess-Brown, N]]

[[Category: Crawley, L]]

[[Category: Delft, F von]]

[[Category: Edwards, A]]

[[Category: Gileadi, C]]

[[Category: Johansson, C]]

[[Category: Krojer, T]]

[[Category: Oppermann, U]]

[[Category: Szykowska, A]]

[[Category: Vollmar, M]]

[[Category: Demethylase/2og]]

[[Category: Flj10251]]

[[Category: Jumonji domain containing 2d]]

[[Category: Kdm4d]]

[[Category: Mgc141909]]

[[Category: Transcription]]

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+==crystal structure of human JMJD2D in complex with N-OXALYLGLYCINE and bound 5,6-Dimethylbenzimidazole==
+<StructureSection load='4d6s' size='340' side='right' caption='[[4d6s]], [[Resolution|resolution]] 1.40&Aring;' scene=''>
-The entry 4d6s is ON HOLD
+== Structural highlights ==
+<table><tr><td colspan='2'>[[4d6s]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D6S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D6S FirstGlance]. <br>
-Authors: Krojer, T., Vollmar, M., Bradley, A., Crawley, L., Szykowska, A., Burgess-Brown, N., Gileadi, C., Johansson, C., Oppermann, U., Bountra, C., Arrowsmith, C.H., Edwards, A., von Delft, F.
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMD:5,6-DIMETHYLBENZIMIDAZOLE'>DMD</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=OGA:N-OXALYLGLYCINE'>OGA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
+<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4d6q|4d6q]], [[4d6r|4d6r]]</td></tr>
-Description: crystal structure of human JMJD2D in complex with N-OXALYLGLYCINE and bound 5,6-Dimethylbenzimidazole
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4d6s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d6s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4d6s RCSB], [http://www.ebi.ac.uk/pdbsum/4d6s PDBsum]</span></td></tr>
+</table>
+== Function ==
+[[http://www.uniprot.org/uniprot/KDM4D_HUMAN KDM4D_HUMAN]] Histone demethylase that specifically demethylates 'Lys-9' of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27', H3 'Lys-36' nor H4 'Lys-20'. Demethylates both di- and trimethylated H3 'Lys-9' residue, while it has no activity on monomethylated residues. Demethylation of Lys residue generates formaldehyde and succinate.<ref>PMID:16603238</ref>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Arrowsmith, C H]]
+[[Category: Bountra, C]]
+[[Category: Bradley, A]]
+[[Category: Burgess-Brown, N]]
+[[Category: Crawley, L]]
+[[Category: Delft, F von]]
+[[Category: Edwards, A]]
+[[Category: Gileadi, C]]
+[[Category: Johansson, C]]
+[[Category: Krojer, T]]
+[[Category: Oppermann, U]]
+[[Category: Szykowska, A]]
+[[Category: Vollmar, M]]
+[[Category: Demethylase/2og]]
+[[Category: Flj10251]]
+[[Category: Jumonji domain containing 2d]]
+[[Category: Kdm4d]]
+[[Category: Mgc141909]]
+[[Category: Transcription]]