Annotations: 3NYB

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF03828	e3nybA4	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: PAP/OAS1 substrate-binding domain	F: PF03828	ECOD (1.6)
A	PF22600	e3nybA3	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF22600	ECOD (1.6)
B	PF00098	e3nybB2	A: few secondary structure elements	X: CCHC-type 1 zinc finger	H: CCHC-type 1 zinc finger (From Topology)	T: CCHC-type 1 zinc finger	F: PF00098	ECOD (1.6)
B	PF21759	e3nybB1	A: few secondary structure elements	X: CCHC-type 1 zinc finger	H: CCHC-type 1 zinc finger (From Topology)	T: CCHC-type 1 zinc finger	F: PF21759	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.1410.10	Mainly Alpha	Orthogonal Bundle	Poly(a)-polymerase, middle domain		CATH (4.3.0)
A	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
B	4.10.60.10	Few Secondary Structures	Irregular	HIV-1 Nucleocapsid Protein	Zinc finger, CCHC-type	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF03828	Cid1 family poly A polymerase (PAP_assoc)	Cid1 family poly A polymerase	-	Family
A	PF01909	Nucleotidyltransferase domain (NTP_transf_2)	Nucleotidyltransferase domain	Members of this family belong to a large family of nucleotidyltransferases [1]. This family includes kanamycin nucleotidyltransferase (KNTase) which is a plasmid-coded enzyme responsible for some types of bacterial resistance to aminoglycosides. KNTa ...	Members of this family belong to a large family of nucleotidyltransferases [1]. This family includes kanamycin nucleotidyltransferase (KNTase) which is a plasmid-coded enzyme responsible for some types of bacterial resistance to aminoglycosides. KNTase in-activates antibiotics by catalysing the addition of a nucleotidyl group onto the drug.	Domain
B	PF00098	Zinc knuckle (zf-CCHC)	Zinc knuckle	The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eu ...	The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.	Domain
B	PF21759	AIR2-like, CCHC-type 1 zinc finger 4 (AIR2-like_ZnK4)	AIR2-like, CCHC-type 1 zinc finger 4	-	Motif

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Poly(A) RNA polymerase protein 2	catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid 5'-deoxyribose-5-phosphate lyase activity lyase activity catalytic activity carbon-oxygen lyase activity RNA binding binding organic cyclic compound binding nucleic acid binding mRNA binding poly(A) RNA polymerase activity adenylyltransferase activity transferase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid 5'-deoxyribose-5-phosphate lyase activity lyase activity catalytic activity carbon-oxygen lyase activity RNA binding binding organic cyclic compound binding nucleic acid binding mRNA binding poly(A) RNA polymerase activity adenylyltransferase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups cation binding ion binding metal ion binding small molecule binding	nuclear RNA surveillance catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process sno(s)RNA metabolic process ncRNA metabolic process nucleic acid catabolic process nuclear RNA surveillance catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process sno(s)RNA metabolic process ncRNA metabolic process nucleic acid catabolic process metabolic process macromolecule metabolic process sno(s)RNA catabolic process RNA surveillance organic substance catabolic process RNA catabolic process nuclear polyadenylation-dependent snoRNA catabolic process cellular biosynthetic process organic substance biosynthetic process RNA 3'-end processing RNA processing poly(A)-dependent snoRNA 3'-end processing sno(s)RNA processing cellular metabolic process gene expression macromolecule biosynthetic process sno(s)RNA 3'-end processing biosynthetic process cellular process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process positive regulation of metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality mRNA catabolic process regulation of biological process positive regulation of nucleobase-containing compound metabolic process negative regulation of metabolic process positive regulation of mRNA metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process positive regulation of RNA metabolic process regulation of gene expression negative regulation of gene expression negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of metabolic process polyadenylation-dependent mRNA catabolic process positive regulation of biological process mRNA destabilization regulation of mRNA catabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process RNA destabilization biological regulation regulation of macromolecule metabolic process regulation of catabolic process mRNA metabolic process regulation of cellular biosynthetic process positive regulation of catabolic process regulation of mRNA stability positive regulation of mRNA catabolic process negative regulation of biosynthetic process regulation of RNA stability regulation of mRNA metabolic process cell division localization nuclear polyadenylation-dependent antisense transcript catabolic process antisense RNA transcript catabolic process antisense RNA metabolic process nuclear polyadenylation-dependent CUT catabolic process CUT metabolic process CUT catabolic process snRNA metabolic process snRNA catabolic process nuclear polyadenylation-dependent snRNA catabolic process regulation of DNA recombination negative regulation of nucleobase-containing compound metabolic process DNA recombination DNA metabolic process negative regulation of DNA recombination negative regulation of DNA metabolic process regulation of DNA metabolic process U4 snRNA 3'-end processing snRNA processing snRNA 3'-end processing histone mRNA catabolic process nuclear-transcribed mRNA catabolic process histone mRNA metabolic process tRNA processing tRNA modification tRNA metabolic process RNA modification macromolecule modification sexual reproduction reproductive process meiotic cell cycle meiotic cell cycle process meiotic DNA double-strand break formation meiosis I cell cycle process cell cycle cell cycle process nuclear mRNA surveillance of mRNA 3'-end processing nuclear mRNA surveillance TRAMP-dependent tRNA surveillance pathway tRNA surveillance tRNA decay RNA fragment catabolic process nuclear polyadenylation-dependent rRNA catabolic process cellular response to stimulus response to stimulus base-excision repair cellular response to stress DNA damage response response to stress DNA repair nuclear polyadenylation-dependent mRNA catabolic process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle cytoplasm cytosol protein-containing complex TRAMP complex nuclear protein-containing complex
B	Protein AIR2	molecular adaptor activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding RNA binding organic cyclic compound binding nucleic acid binding protein-macromolecule adaptor activity	cellular biosynthetic process RNA metabolic process nucleobase-containing compound metabolic process organic substance metabolic process tRNA processing organic substance biosynthetic process RNA processing cellular metabolic process tRNA modification primary metabolic process gene expression macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process cellular biosynthetic process RNA metabolic process nucleobase-containing compound metabolic process organic substance metabolic process tRNA processing organic substance biosynthetic process RNA processing cellular metabolic process tRNA modification primary metabolic process gene expression macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process organic cyclic compound metabolic process RNA modification biosynthetic process ncRNA metabolic process macromolecule modification nucleic acid catabolic process metabolic process cellular process macromolecule metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process RNA catabolic process mRNA catabolic process nuclear RNA surveillance regulation of biological process negative regulation of metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process nucleobase-containing compound catabolic process regulation of gene expression negative regulation of gene expression negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of metabolic process catabolic process macromolecule catabolic process negative regulation of cellular process nuclear mRNA surveillance of mRNA 3'-end processing RNA surveillance negative regulation of macromolecule metabolic process regulation of biosynthetic process nuclear-transcribed mRNA catabolic process nuclear mRNA surveillance biological regulation regulation of macromolecule metabolic process mRNA metabolic process organic cyclic compound catabolic process regulation of cellular biosynthetic process negative regulation of biosynthetic process organic substance catabolic process TRAMP-dependent tRNA surveillance pathway tRNA surveillance tRNA decay RNA fragment catabolic process sno(s)RNA metabolic process sno(s)RNA catabolic process nuclear polyadenylation-dependent snoRNA catabolic process nuclear polyadenylation-dependent rRNA catabolic process nuclear polyadenylation-dependent CUT catabolic process CUT metabolic process CUT catabolic process snRNA metabolic process snRNA catabolic process nuclear polyadenylation-dependent snRNA catabolic process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle protein-containing complex TRAMP complex nuclear protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR043519	Nucleotidyltransferase superfamily	Homologous Superfamily
A	IPR045862	Nucleotidyltransferase Trf4-like	Family
A	IPR002058	PAP/25A-associated	Domain
A	IPR002934	Polymerase, nucleotidyl transferase domain	Domain
B	IPR016713	Poly(A) polymerase complex subunit Air1/2, budding yeast	Family
B	IPR036875	Zinc finger, CCHC-type superfamily	Homologous Superfamily
B	IPR001878	Zinc finger, CCHC-type	Domain
B	IPR049024	AIR2-like, CCHC-type 1 zinc finger 4	Conserved Site

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 R01GM133198.