PHD domain-mediated E3 ligase activity directs intramolecular sumoylation of an adjacent bromodomain required for gene silencing.
Tandem PHD and bromodomains are often found in chromatin-associated proteins and have been shown to cooperate in gene silencing. Each domain can bind specifically modified histones: the mechanisms of cooperation between these domains are unknown. We show that the PHD domain of the KAP1 corepressor functions as an intramolecular E3 ligase for sumoylation of the adjacent bromodomain. The RING finger-like structure of the PHD domain is required for both Ubc9 binding and sumoylation and directs modification to specific lysine residues in the bromodomain. Sumoylation is required for KAP1-mediated gene silencing and functions by directly recruiting the SETDB1 histone methyltransferase and the CHD3/Mi2 component of the NuRD complex via SUMO-interacting motifs. Sumoylated KAP1 stimulates the histone methyltransferase activity of SETDB1. These data provide a mechanistic explanation for the cooperation of PHD and bromodomains in gene regulation and describe a function of the PHD domain as an intramolecular E3 SUMO ligase.
Ivanov
Alexey V
AV
The Wistar Institute, 3601 Spruce Street, Philadelphia, PA 19104, USA.
Peng
Hongzhuang
H
Yurchenko
Vyacheslav
V
Yap
Kyoko L
KL
Negorev
Dmitri G
DG
Schultz
David C
DC
Psulkowski
Elyse
E
Fredericks
William J
WJ
White
David E
DE
Maul
Gerd G
GG
Sadofsky
Moshe J
MJ
Zhou
Ming-Ming
MM
Rauscher
Frank J
FJ
D000251:Adenosine Triphosphatases / Q000235:genetics / Q000378:metabolism; D001324:Autoantigens / Q000235:genetics / Q000378:metabolism; D001859:Bone Neoplasms / Q000235:genetics / Q000378:metabolism / Q000473:pathology; D002478:Cells, Cultured; D002843:Chromatin / Q000378:metabolism; D004265:DNA Helicases / Q000235:genetics / Q000378:metabolism; D004268:DNA-Binding Proteins / Q000037:antagonists & inhibitors / Q000235:genetics* / Q000378:metabolism; D005786:Gene Expression Regulation; D020868:Gene Silencing; D006655:Histone Deacetylases / Q000235:genetics / Q000378:metabolism; D011495:Histone-Lysine N-Methyltransferase; D006801:Humans; D007668:Kidney / Q000378:metabolism; D008239:Lysine / Q000737:chemistry; D056245:Mi-2 Nucleosome Remodeling and Deacetylase Complex; D012516:Osteosarcoma / Q000235:genetics / Q000378:metabolism / Q000473:pathology; D011496:Protein Methyltransferases / Q000235:genetics / Q000378:metabolism; D011499:Protein Processing, Post-Translational; D054829:RING Finger Domains; D012097:Repressor Proteins / Q000037:antagonists & inhibitors / Q000235:genetics* / Q000378:metabolism; D012441:Saccharomyces cerevisiae / Q000235:genetics / Q000254:growth & development / Q000378:metabolism; D025841:Small Ubiquitin-Related Modifier Proteins / Q000378:metabolism*; D014158:Transcription, Genetic; D000076183:Tripartite Motif-Containing Protein 28; D020798:Two-Hybrid System Techniques; D044763:Ubiquitin-Conjugating Enzymes / Q000235:genetics / Q000378:metabolism; D044767:Ubiquitin-Protein Ligases / Q000235:genetics / Q000378:metabolism*; D000098843:Ubiquitin-Conjugating Enzyme UBC9
D001324:Autoantigens; C115323:CHD4 protein, human; D002843:Chromatin; D004268:DNA-Binding Proteins; D012097:Repressor Proteins; D025841:Small Ubiquitin-Related Modifier Proteins; D011496:Protein Methyltransferases; D011495:Histone-Lysine N-Methyltransferase; C454062:SETDB1 protein, human; D044763:Ubiquitin-Conjugating Enzymes; C101116:TRIM28 protein, human; D000076183:Tripartite Motif-Containing Protein 28; D044767:Ubiquitin-Protein Ligases; D006655:Histone Deacetylases; D056245:Mi-2 Nucleosome Remodeling and Deacetylase Complex; D000251:Adenosine Triphosphatases; D004265:DNA Helicases; C115322:CHD3 protein, human; D000098843:Ubiquitin-Conjugating Enzyme UBC9; D008239:Lysine