Annotations: 4Q2J

A novel structure-based mechanism for DNA-binding of SATB1

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	lambda C1 repressor DNA-binding domain-like	8053933	3000119	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Ubiquitin-like	8053931	3000157	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Ubiquitin-like	8053931	3000157	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ubiquitin-like	8053931	3000157	SCOP2B (2022-06-29)
A	SCOP2 Family	SATB1 N-terminal domain-like	8045731	4004645	SCOP2 (2022-06-29)
A	SCOP2 Family	SATB1 DNA-binding domain-like	8045771	4004674	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Ubiquitin-like	8053931	3000157	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	lambda C1 repressor DNA-binding domain-like	8053933	3000119	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Transpeptidase	e4q2jD1	A: a/b three-layered sandwiches	X: Glucocorticoid receptor-like	H: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	T: alpha-helical domain in beta-lactamase/transpeptidase-like proteins	F: Transpeptidase	ECOD (v294.1)
C	Penicil_amidase	e4q2jC1	A: a/b three-layered sandwiches	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: Penicil_amidase	ECOD (v294.1)
B	Penicil_amidase	e4q2jB1	A: a/b three-layered sandwiches	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: Penicil_amidase	ECOD (v294.1)
A	V_ATPase_I	e4q2jA1	A: a/b three-layered sandwiches	X: Alpha-beta plaits	H: Pseudouridine synthase	T: Pseudouridine synthase	F: V_ATPase_I	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.10.20.710	Alpha Beta	Roll	Ubiquitin-like (UB roll)	SATB, ubiquitin-like oligomerisation domain	CATH (4.3.0)
D	1.10.260.70	Mainly Alpha	Orthogonal Bundle	434 Repressor (Amino-terminal Domain)	SATB, CULT domain	CATH (4.3.0)
C	3.10.20.710	Alpha Beta	Roll	Ubiquitin-like (UB roll)	SATB, ubiquitin-like oligomerisation domain	CATH (4.3.0)
B	3.10.20.710	Alpha Beta	Roll	Ubiquitin-like (UB roll)	SATB, ubiquitin-like oligomerisation domain	CATH (4.3.0)
A	3.10.20.710	Alpha Beta	Roll	Ubiquitin-like (UB roll)	SATB, ubiquitin-like oligomerisation domain	CATH (4.3.0)
A	1.10.260.70	Mainly Alpha	Orthogonal Bundle	434 Repressor (Amino-terminal Domain)	SATB, CULT domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF16534	Ubiquitin-like oligomerisation domain of SATB (ULD)	Ubiquitin-like oligomerisation domain of SATB	ULD is an N-terminal oligomerisation domain of SATB or special AT-rich sequence-binding proteins. SATBs are global chromatin organisers and regulators of gene expression that are essential for T-cell development, breast cancer tumour growth and meta ...	ULD is an N-terminal oligomerisation domain of SATB or special AT-rich sequence-binding proteins. SATBs are global chromatin organisers and regulators of gene expression that are essential for T-cell development, breast cancer tumour growth and metastasis. SATBs assemble into a tetramer via the ULD domain, and the tetramerisation of SATBs are essential for recognising specific DNA sequences (such as multiple AT-rich DNA fragments). Thus, SATBs may regulate gene expression directly by binding to various promoters and upstream regions and thereby influencing promoter activity [1].	Domain
A, B, C, D	PF16557	CUT1-like DNA-binding domain of SATB (CUTL)	CUT1-like DNA-binding domain of SATB	CUTL is part of the N-terminal region of SATB proteins, special AT-rich sequence-binding proteins that are global chromatin organisers and gene expression regulators essential for T-cell development and breast cancer tumour growth and metastasis. CUT ...	CUTL is part of the N-terminal region of SATB proteins, special AT-rich sequence-binding proteins that are global chromatin organisers and gene expression regulators essential for T-cell development and breast cancer tumour growth and metastasis. CUTL carries a DNA-binding region just as CUT domains do [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	DNA-binding protein SATB1	DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription repressor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription repressor activity DNA-binding transcription factor activity DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription repressor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription repressor activity DNA-binding transcription factor activity DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding chromatin binding transcription factor binding protein binding DNA-binding transcription factor binding	developmental process epidermis development anatomical structure development tissue development reflex response to stimulus response to external stimulus multicellular organismal process T cell activation immune system process cell activation cellular process lymphocyte activation leukocyte activation developmental process epidermis development anatomical structure development tissue development reflex response to stimulus response to external stimulus multicellular organismal process T cell activation immune system process cell activation cellular process lymphocyte activation leukocyte activation regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process cellular developmental process CD8-positive, alpha-beta T cell activation CD8-positive, alpha-beta T cell differentiation hemopoiesis cell development mononuclear cell differentiation lymphocyte differentiation alpha-beta T cell differentiation cell differentiation alpha-beta T cell activation T cell differentiation leukocyte differentiation transcription by RNA polymerase II regulation of transcription by RNA polymerase II CD4-positive, alpha-beta T cell differentiation CD4-positive, alpha-beta T cell activation negative regulation of biological process negative regulation of RNA biosynthetic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process cell population proliferation leukocyte proliferation activated T cell proliferation mononuclear cell proliferation lymphocyte proliferation T cell proliferation cellular component organization chromatin organization cellular component organization or biogenesis chromatin remodeling	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle nuclear lumen nuclear matrix nucleoplasm membraneless organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle nuclear lumen nuclear matrix nucleoplasm membraneless organelle intracellular membraneless organelle chromatin chromosome heterochromatin nuclear body PML body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR038216	SATB, CUTL domain superfamily	Homologous Superfamily
A, B, C, D	IPR039673	DNA-binding protein SATB1/SATB2	Family
A, B, C, D	IPR032355	SATB, CUT1-like DNA-binding domain	Domain
A, B, C, D	IPR003350	CUT domain	Domain
A, B, C, D	IPR009057	Homedomain-like superfamily	Homologous Superfamily
A, B, C, D	IPR032392	SATB, ubiquitin-like oligomerisation domain	Domain
A, B, C, D	IPR038224	SATB, ULD domain superfamily	Homologous Superfamily
A, B, C, D	IPR010982	Lambda repressor-like, DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR001356	Homeodomain	Domain

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.