4J19 | pdb_00004j19

Structure of a novel telomere repeat binding protein bound to DNA

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d4j19b_	All alpha proteins	DNA/RNA-binding 3-helical bundle	Homeodomain-like	Homeodomain	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d4j19a_	All alpha proteins	DNA/RNA-binding 3-helical bundle	Homeodomain-like	Homeodomain	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Homeodomain-like	8057594	3000001	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Homeodomain-like	8057594	3000001	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	zf-MYND	e4j19B1	A: alpha bundles	X: jelly-roll	H: Double-stranded beta-helix	T: Double-stranded beta-helix	F: zf-MYND	ECOD (develop294)
A	Avidin	e4j19A1	A: alpha bundles	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: Avidin	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.10.10.60	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Homeodomain-like	CATH (4.3.0)
A	1.10.10.60	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Homeodomain-like	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00046	Homeodomain (Homeodomain)	Homeodomain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D	DNA (5'-D(TPCPTPAPAPCPCPCPTPAPAPCPCPCPTPAPAPCP*A)-3')	-	-	-
C	DNA (5'-D(CPTPGPTPTPAPGPGPGPTPTPAPGPGPGPTPTPAP*G)-3')	-	-	-
A, B	Homeobox-containing protein 1	sequence-specific DNA binding DNA binding binding nucleic acid binding telomeric DNA binding double-stranded telomeric DNA binding double-stranded DNA binding protein-containing complex binding sequence-specific double-stranded DNA binding identical protein binding protein binding	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic 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 negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process telomere maintenance via telomerase telomere organization chromosome organization DNA metabolic process RNA-templated DNA biosynthetic process telomere maintenance via telomere lengthening telomere maintenance cellular component organization organelle organization cellular component organization or biogenesis DNA biosynthetic process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process protein-containing complex organization protein-DNA complex assembly cellular component biogenesis protein-DNA complex organization cellular component assembly telomere-telomerase complex assembly protein-containing complex assembly transcription by RNA polymerase II regulation of transcription by RNA polymerase II negative regulation of transcription by RNA polymerase II	intracellular organelle centrosome microtubule organizing center cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol membrane-bounded organelle nucleus intracellular organelle centrosome microtubule organizing center cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen chromatin chromosome Cajal body ribonucleoprotein granule nuclear body supramolecular complex nuclear ribonucleoprotein granule chromosome, telomeric region chromosomal region PML body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001387	Cro/C1-type, helix-turn-helix domain	Domain
A, B	IPR044869	HNF-1, POU-specific (POUs) atypical domain	Domain
A, B	IPR040363	Homeobox-containing protein 1	Family
A, B	IPR044866	HNF-1, dimerization domain	Domain
A, B	IPR009057	Homedomain-like superfamily	Homologous Superfamily
A, B	IPR010982	Lambda repressor-like, DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR001356	Homeodomain	Domain
A, B	IPR006899	Hepatocyte nuclear factor 1, N-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q6NT76	Alzheimer disease lung adenocarcinoma oligodendroglioma breast carcinoma malignant mesothelioma ovarian cancer ductal breast carcinoma in situ malignant pancreatic neoplasm pancreatic ductal adenocarcinoma

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.