6Z9U | pdb_00006z9u

Crystal structure of a TSEN15-34 heterodimer.

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
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	tRNA-intron endonuclease catalytic domain-like	8034132	3000437	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	tRNA-intron endonuclease catalytic domain-like	8034132	3000437	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)
D	Sen15	e6z9uD1	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: tRNA-intron endonuclease catalytic domain-like (From Topology)	T: tRNA-intron endonuclease catalytic domain-like	F: Sen15	ECOD (1.6)
B	Sen15	e6z9uB1	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: tRNA-intron endonuclease catalytic domain-like (From Topology)	T: tRNA-intron endonuclease catalytic domain-like	F: Sen15	ECOD (1.6)
C	tRNA_int_endo	e6z9uC1	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: tRNA-intron endonuclease catalytic domain-like (From Topology)	T: tRNA-intron endonuclease catalytic domain-like	F: tRNA_int_endo	ECOD (1.6)
A	tRNA_int_endo	e6z9uA1	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: tRNA-intron endonuclease catalytic domain-like (From Topology)	T: tRNA-intron endonuclease catalytic domain-like	F: tRNA_int_endo	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.40.1350.10	Alpha Beta	3-Layer(aba) Sandwich	Trna Endonuclease	Chain: A, domain 1	CATH (utative)
A	3.40.1350.10	Alpha Beta	3-Layer(aba) Sandwich	Trna Endonuclease	Chain: A, domain 1	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D	PF09631	Sen15 protein (Sen15)	Sen15 protein	The Sen15 subunit of the tRNA intron-splicing endonuclease is one of the two structural subunits of this hetero-tetrameric enzyme. Residues 36-157 of this subunit possess a novel homodimeric fold. Each monomer consists of three alpha-helices and a m ...	The Sen15 subunit of the tRNA intron-splicing endonuclease is one of the two structural subunits of this hetero-tetrameric enzyme. Residues 36-157 of this subunit possess a novel homodimeric fold. Each monomer consists of three alpha-helices and a mixed antiparallel/parallel beta-sheet. Two monomers of Sen15 fold with two monomers of Sen34, one of the two catalytic subunits, to form an alpha2-beta2 tetramer as part of the functional endonuclease assembly.	Domain
A, C	PF01974	tRNA intron endonuclease, catalytic C-terminal domain (tRNA_int_endo)	tRNA intron endonuclease, catalytic C-terminal domain	Members of this family cleave pre tRNA at the 5' and 3' splice sites to release the intron EC:3.1.27.9.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D	tRNA-splicing endonuclease subunit Sen15	binding nucleic acid binding	RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process biosynthetic process RNA splicing, via endonucleolytic cleavage and ligation tRNA processing RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process biosynthetic process RNA splicing, via endonucleolytic cleavage and ligation tRNA processing metabolic process cellular process RNA processing macromolecule metabolic process mRNA processing mRNA metabolic process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen nucleoplasm
A, C	tRNA-splicing endonuclease subunit Sen34	binding nucleic acid binding tRNA-specific ribonuclease activity endonuclease activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA nuclease activity catalytic activity, acting on a tRNA tRNA-intron lyase activity phosphorus-oxygen lyase activity nuclease activity RNA endonuclease activity lyase activity catalytic activity	RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process tRNA-type intron splice site recognition and cleavage biosynthetic process RNA splicing, via endonucleolytic cleavage and ligation RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process tRNA-type intron splice site recognition and cleavage biosynthetic process RNA splicing, via endonucleolytic cleavage and ligation tRNA processing metabolic process cellular process RNA processing macromolecule metabolic process mRNA processing mRNA metabolic process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen protein-containing complex catalytic complex nuclear protein-containing complex endonuclease complex endoribonuclease complex intracellular protein-containing complex tRNA-intron endonuclease complex nucleoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR011856	tRNA endonuclease-like domain superfamily	Homologous Superfamily
B, D	IPR036167	tRNA intron endonuclease, catalytic domain-like superfamily	Homologous Superfamily
B, D	IPR018593	tRNA-splicing endonuclease subunit Sen15	Domain
A, C	IPR006677	tRNA intron endonuclease, catalytic domain-like	Domain
A, C	IPR016690	TSEN34	Family
A, C	IPR011856	tRNA endonuclease-like domain superfamily	Homologous Superfamily
A, C	IPR036167	tRNA intron endonuclease, catalytic domain-like superfamily	Homologous Superfamily
A, C	IPR006676	tRNA-splicing endonuclease	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B, D	Pharos: Q8WW01	pontocerebellar hypoplasia, type 2F adrenoleukodystrophy Cerebellar Hypoplasia osteoarthritis pancreatic intraductal papillary-mucinous neoplasm pontocerebellar hypoplasia type 2 progressive supranuclear palsy atypical teratoid rhabdoid tumor glioblastoma osteosarcoma Pick disease breast cancer large cell medulloblastoma ovarian cancer pontocerebellar hypoplasia pontocerebellar hypoplasia, type 2F adrenoleukodystrophy Cerebellar Hypoplasia osteoarthritis pancreatic intraductal papillary-mucinous neoplasm pontocerebellar hypoplasia type 2 progressive supranuclear palsy atypical teratoid rhabdoid tumor glioblastoma osteosarcoma Pick disease breast cancer large cell medulloblastoma ovarian cancer pontocerebellar hypoplasia primitive neuroectodermal tumor
A, C	Pharos: Q9BSV6	pontocerebellar hypoplasia type 2C microcephaly intellectual disability pontocerebellar hypoplasia vision disorder Deglutition Disorders neurodegenerative disease alcoholic liver cirrhosis movement disorder pontocerebellar hypoplasia type 2 prostate carcinoma Takayasu arteritis arthrogryposis atypical teratoid rhabdoid tumor glioblastoma pontocerebellar hypoplasia type 2C microcephaly intellectual disability pontocerebellar hypoplasia vision disorder Deglutition Disorders neurodegenerative disease alcoholic liver cirrhosis movement disorder pontocerebellar hypoplasia type 2 prostate carcinoma Takayasu arteritis arthrogryposis atypical teratoid rhabdoid tumor glioblastoma microlissencephaly ovarian cancer psoriasis astrocytic tumor malignant glioma

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.