6RR0

Crystal structure of the Sir4 H-BRCT domain in complex with Ubp10 pT123 peptide

External Resource: Annotation

Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	DBF4	e6rr0A1	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: DBF4	ECOD (1.6)
B	DBF4	e6rr0B1	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: DBF4	ECOD (1.6)
C	DBF4	e6rr0C1	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: DBF4	ECOD (1.6)
D	DBF4	e6rr0D1	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: DBF4	ECOD (1.6)
E	DBF4	e6rr0E1	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: DBF4	ECOD (1.6)
F	DBF4	e6rr0F1	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: DBF4	ECOD (1.6)
G	DBF4	e6rr0G1	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: DBF4	ECOD (1.6)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G	Regulatory protein SIR4	DNA binding double-stranded DNA binding binding organic cyclic compound binding nucleic acid binding molecular adaptor activity protein-containing complex binding chromatin binding nucleosome binding	localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization cellular localization establishment of protein-containing complex localization to telomere cellular macromolecule localization macromolecule localization cellular process establishment of localization protein-containing complex localization subtelomeric heterochromatin formation regulation of cellular process localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization cellular localization establishment of protein-containing complex localization to telomere cellular macromolecule localization macromolecule localization cellular process establishment of localization protein-containing complex localization subtelomeric heterochromatin formation regulation of cellular process cellular biosynthetic process negative regulation of biological process telomere organization negative regulation of cellular metabolic process cellular component organization chromatin organization negative regulation of cellular process chromatin remodeling cellular component organization or biogenesis negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process heterochromatin formation epigenetic regulation of gene expression cellular metabolic process negative regulation of metabolic process biological regulation chromosome organization regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression organelle organization negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process silent mating-type cassette heterochromatin formation cellular response to stimulus double-strand break repair response to stimulus double-strand break repair via nonhomologous end joining primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress DNA repair positive regulation of organelle organization cellular component biogenesis regulation of heterochromatin formation regulation of chromatin organization regulation of chromosome organization regulation of organelle organization positive regulation of chromosome organization regulation of cellular component organization positive regulation of cellular component organization positive regulation of biological process positive regulation of heterochromatin formation positive regulation of chromatin organization positive regulation of cellular process positive regulation of cellular component biogenesis regulation of cellular component biogenesis	membrane-bounded organelle intracellular organelle protein-containing complex intracellular anatomical structure organelle chromatin silencing complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity intracellular non-membrane-bounded organelle chromosome chromosome, telomeric region chromosomal region membrane-bounded organelle intracellular organelle protein-containing complex intracellular anatomical structure organelle chromatin silencing complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity intracellular non-membrane-bounded organelle chromosome chromosome, telomeric region chromosomal region non-membrane-bounded organelle
H, I, J, K, L H, I, J, K, L, M, N	Ubiquitin carboxyl-terminal hydrolase 10	cysteine-type peptidase activity ubiquitin-like protein peptidase activity peptidase activity cysteine-type deubiquitinase activity catalytic activity, acting on a protein hydrolase activity catalytic activity deubiquitinase activity	subtelomeric heterochromatin formation regulation of cellular process cellular biosynthetic process negative regulation of biological process telomere organization negative regulation of cellular metabolic process cellular component organization chromatin organization negative regulation of cellular process chromatin remodeling cellular component organization or biogenesis negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process subtelomeric heterochromatin formation regulation of cellular process cellular biosynthetic process negative regulation of biological process telomere organization negative regulation of cellular metabolic process cellular component organization chromatin organization negative regulation of cellular process chromatin remodeling cellular component organization or biogenesis negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process heterochromatin formation epigenetic regulation of gene expression cellular metabolic process negative regulation of metabolic process biological regulation chromosome organization regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression organelle organization negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process cellular process negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process protein deubiquitination protein modification by small protein removal macromolecule modification primary metabolic process protein metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation or removal proteolysis	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle cytoplasm cytosol nuclear replication fork nuclear chromosome chromosome replication fork chromosome, telomeric region chromosomal region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G	IPR031556	Sir4, SID domain	Domain
H, I, J, K, L H, I, J, K, L, M, N	IPR028889	Ubiquitin specific protease domain	Domain
H, I, J, K, L H, I, J, K, L, M, N	IPR018200	Ubiquitin specific protease, conserved site	Conserved Site
H, I, J, K, L H, I, J, K, L, M, N	IPR001394	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	Domain
H, I, J, K, L H, I, J, K, L, M, N	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
H, I, J, K, L H, I, J, K, L, M, N	IPR050185	Ubiquitin carboxyl-terminal hydrolase	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
H, I, J, K, L H, I, J, K, L, M, N	TPO	Parent Component: THR RESID: AA0038 PSI-MOD : O-phospho-L-threonine MOD:00047

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.