1QHK | pdb_00001qhk

N-TERMINAL DOMAIN OF SACCHAROMYCES CEREVISIAE RNASE HI REVEALS A FOLD WITH A RESEMBLANCE TO THE N-TERMINAL DOMAIN OF RIBOSOMAL PROTEIN L9

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)
A	d1qhka_	Alpha and beta proteins (a+b)	MbtH/L9 domain-like	L9 N-domain-like	N-terminal domain of RNase HI	N-terminal domain of RNase HI	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	N-terminal domain of RNase HI	8023499	4001760	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	L9 N-domain-like	8035879	3000338	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)
A	Cauli_VI	e1qhkA1	A: a+b two layers	X: L9 N-domain-like	H: L9 N-domain-like (From Topology)	T: L9 N-domain-like	F: Cauli_VI	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.970.10	Alpha Beta	3-Layer(aba) Sandwich	Ribonuclease HI	Chain A	CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01693	Ribonuclease H1 N-terminal domain (Cauli_VI)	Ribonuclease H1 N-terminal domain	This domain is found at the N-terminal of ribonuclease H1 from human, its fungal orthologues and in various caulimovirus viroplasmin proteins. This domain consists of three-stranded antiparallel beta-sheet and two short alpha-helices that pack onto o ...	This domain is found at the N-terminal of ribonuclease H1 from human, its fungal orthologues and in various caulimovirus viroplasmin proteins. This domain consists of three-stranded antiparallel beta-sheet and two short alpha-helices that pack onto opposite faces of the beta-sheet [3] and is structurally similar to ribosomal protein L9 which binds to 23 S ribosomal RNA. RNase H1 belong to the family of ribonuclease H enzymes that recognise RNA:DNA hybrids and degrade the RNA component. The viroplasmin protein is encoded by gene VI and is the main component of viral inclusion bodies or viroplasms [2]. Inclusions are the site of viral assembly, DNA synthesis and accumulation [2]. Two domains exist within gene VI corresponding approximately to the 5' third and middle third of gene VI, these influence systemic infection in a light-dependent manner [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	PROTEIN (RIBONUCLEASE HI)	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding nucleic acid binding 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 cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding nucleic acid binding 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	catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process nucleic acid catabolic process metabolic process cellular process macromolecule metabolic process RNA catabolic process DNA replication, removal of RNA primer DNA metabolic process catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process nucleic acid catabolic process metabolic process cellular process macromolecule metabolic process RNA catabolic process DNA replication, removal of RNA primer DNA metabolic process DNA replication	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A	IPR037056	Ribonuclease H1, N-terminal domain superfamily	Homologous Superfamily
A	IPR002156	Ribonuclease H domain	Domain
A	IPR050092	Ribonuclease H	Family
A	IPR011320	Ribonuclease H1, N-terminal	Domain
A	IPR009027	Large ribosomal subunit protein bL9/RNase H1, N-terminal	Homologous Superfamily
A	IPR017067	Ribonuclease H1, eukaryote	Family
A	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.