1WDU | pdb_00001wdu

Endonuclease domain of TRAS1, a telomere-specific non-LTR retrotransposon

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d1wdub_	Alpha and beta proteins (a+b)	DNase I-like	DNase I-like	DNase I-like	Endonuclease domain of TRAS1 retrotransposon (ORF2)	domestic silkworm (Bombyx mori ) [TaxId: 7091 ],	SCOPe (2.08)
A	d1wdua_	Alpha and beta proteins (a+b)	DNase I-like	DNase I-like	DNase I-like	Endonuclease domain of TRAS1 retrotransposon (ORF2)	domestic silkworm (Bombyx mori ) [TaxId: 7091 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	DNase I-like	8029335	4002213	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	DNase I-like	8041714	3000957	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	DNase I-like	8041714	3000957	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	Exo_endo_phos_2	e1wduB1	A: a+b four layers	X: Carbon-nitrogen hydrolase-like	H: DNase I-like (From Topology)	T: DNase I-like	F: Exo_endo_phos_2	ECOD (1.6)
A	Exo_endo_phos_2	e1wduA1	A: a+b four layers	X: Carbon-nitrogen hydrolase-like	H: DNase I-like (From Topology)	T: DNase I-like	F: Exo_endo_phos_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.60.10.10	Alpha Beta	4-Layer Sandwich	Deoxyribonuclease I	Chain A	CATH (4.3.0)
A	3.60.10.10	Alpha Beta	4-Layer Sandwich	Deoxyribonuclease I	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF14529	Endonuclease-reverse transcriptase (Exo_endo_phos_2)	Endonuclease-reverse transcriptase	This domain represents the endonuclease region of retrotransposons from a range of bacteria, archaea and eukaryotes. These are enzymes largely from class EC:2.7.7.49.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	TRAS1 ORF2p	endonuclease activity RNA endonuclease activity producing 5'-phosphomonoesters, hydrolytic mechanism catalytic activity, acting on RNA RNA-DNA hybrid ribonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity hydrolase activity hydrolase activity, acting on ester bonds nuclease activity RNA endonuclease activity catalytic activity binding nucleic acid binding	primary metabolic process DNA metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process DNA biosynthetic process	transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex transferase complex DNA polymerase complex intracellular protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR005135	Endonuclease/exonuclease/phosphatase	Domain
A, B	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A, B	IPR002156	Ribonuclease H domain	Domain
A, B	IPR000477	Reverse transcriptase domain	Domain
A, B	IPR036691	Endonuclease/exonuclease/phosphatase superfamily	Homologous Superfamily
A, B	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily

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.