2lkm: Difference between revisions

Revision as of 11:05, 15 February 2023

Structural Basis for Molecular Interactions Involving MRG Domains: Implications in Chromatin Biology

Structural highlights

2lkm is a 2 chain structure with sequence from Homo sapiens. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PHF12_HUMAN Acts as a transcriptional repressor. Involved in recruitment of functional SIN3A complexes to DNA. Represses transcription at least in part through the activity of an associated histone deacetylase (HDAC). May also repress transcription in a SIN3A-independent manner through recruitment of functional AES complexes to DNA.^[1]

Publication Abstract from PubMed

MRG15 is a member of the mortality family of transcription factors that targets a wide variety of multiprotein complexes involved in transcription regulation, DNA repair, and alternative splicing to chromatin. The structure of the apo-MRG15 MRG domain implicated in interactions with diverse proteins has been described, but not in complex with any of its targets. Here, we structurally and functionally characterize the interaction between MRG15 and Pf1, two constitutively associated subunits of the histone deacetylase-associated Rpd3S/Sin3S corepressor complex. The MRG domain adopts a structure reminiscent of the apo state, whereas the Pf1 MRG-binding domain engages two discrete hydrophobic surfaces on the MRG domain via a bipartite motif comprising an alpha-helix and a segment in an extended conformation, both of which are critical for high-affinity interactions. Multiple MRG15 interactors share an FxLP motif in the extended segment, but equivalent sequence/helical motifs are not readily evident, implying potential diversity in MRG-recognition mechanisms.

Structural basis for molecular interactions involving MRG domains: implications in chromatin biology.,Xie T, Graveline R, Kumar GS, Zhang Y, Krishnan A, David G, Radhakrishnan I Structure. 2012 Jan 11;20(1):151-60. PMID:22244764^[2]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Yochum GS, Ayer DE. Pf1, a novel PHD zinc finger protein that links the TLE corepressor to the mSin3A-histone deacetylase complex. Mol Cell Biol. 2001 Jul;21(13):4110-8. PMID:11390640 doi:https://dx.doi.org/10.1128/MCB.21.13.4110-4118.2001
↑ Xie T, Graveline R, Kumar GS, Zhang Y, Krishnan A, David G, Radhakrishnan I. Structural basis for molecular interactions involving MRG domains: implications in chromatin biology. Structure. 2012 Jan 11;20(1):151-60. PMID:22244764 doi:10.1016/j.str.2011.10.019

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Yochum GS, Ayer DE. Pf1, a novel PHD zinc finger protein that links the TLE corepressor to the mSin3A-histone deacetylase complex. Mol Cell Biol. 2001 Jul;21(13):4110-8. PMID:11390640 doi:https://dx.doi.org/10.1128/MCB.21.13.4110-4118.2001

[2] Xie T, Graveline R, Kumar GS, Zhang Y, Krishnan A, David G, Radhakrishnan I. Structural basis for molecular interactions involving MRG domains: implications in chromatin biology. Structure. 2012 Jan 11;20(1):151-60. PMID:22244764 doi:10.1016/j.str.2011.10.019

[1]

[2]

@@ Line 1: / Line 1: @@
 ==Structural Basis for Molecular Interactions Involving MRG Domains: Implications in Chromatin Biology==
-<StructureSection load='2lkm' size='340' side='right'caption='[[2lkm]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
+<StructureSection load='2lkm' size='340' side='right'caption='[[2lkm]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2lkm]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LKM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LKM FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2lkm]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LKM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LKM FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PHF12, KIAA1523 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), MORF4L1, MRG15, FWP006, HSPC008, HSPC061, PP368 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
+</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=2lkm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lkm OCA], [https://pdbe.org/2lkm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lkm RCSB], [https://www.ebi.ac.uk/pdbsum/2lkm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lkm ProSAT]</span></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=2lkm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lkm OCA], [https://pdbe.org/2lkm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lkm RCSB], [https://www.ebi.ac.uk/pdbsum/2lkm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lkm ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/PHF12_HUMAN PHF12_HUMAN]] Acts as a transcriptional repressor. Involved in recruitment of functional SIN3A complexes to DNA. Represses transcription at least in part through the activity of an associated histone deacetylase (HDAC). May also repress transcription in a SIN3A-independent manner through recruitment of functional AES complexes to DNA.<ref>PMID:11390640</ref>  [[https://www.uniprot.org/uniprot/MO4L1_HUMAN MO4L1_HUMAN]] Component of the NuA4 histone acetyltransferase (HAT) complex which is involved in transcriptional activation of select genes principally by acetylation of nucleosomal histones H4 and H2A. This modification may both alter nucleosome - DNA interactions and promote interaction of the modified histones with other proteins which positively regulate transcription. This complex may be required for the activation of transcriptional programs associated with oncogene and proto-oncogene mediated growth induction, tumor suppressor mediated growth arrest and replicative senescence, apoptosis, and DNA repair. The NuA4 complex ATPase and helicase activities seem to be, at least in part, contributed by the association of RUVBL1 and RUVBL2 with EP400. NuA4 may also play a direct role in DNA repair when directly recruited to sites of DNA damage. Also component of the mSin3A complex which acts to repress transcription by deacetylation of nucleosomal histones. Required for homologous recombination repair (HRR) and resistance to mitomycin C (MMC). Involved in the localization of PALB2, BRCA2 and RAD51, but not BRCA1, to DNA-damage foci.<ref>PMID:14966270</ref> <ref>PMID:20332121</ref>
+[https://www.uniprot.org/uniprot/PHF12_HUMAN PHF12_HUMAN] Acts as a transcriptional repressor. Involved in recruitment of functional SIN3A complexes to DNA. Represses transcription at least in part through the activity of an associated histone deacetylase (HDAC). May also repress transcription in a SIN3A-independent manner through recruitment of functional AES complexes to DNA.<ref>PMID:11390640</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 22: / Line 21: @@
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
 [[Category: Large Structures]]
-[[Category: Radhakrishnan, I]]
+[[Category: Radhakrishnan I]]
-[[Category: Xie, T]]
+[[Category: Xie T]]
-[[Category: Protein-protein complex]]
-[[Category: Transcription]]

2lkm: Difference between revisions

Revision as of 11:05, 15 February 2023

Structural Basis for Molecular Interactions Involving MRG Domains: Implications in Chromatin Biology

Structural highlights

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Publication Abstract from PubMed

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