2MOW

Structure of Nrd1p CID - Trf4p NIM complex

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Pcf11 CTD-interacting domain (CID)-like	8046496	4002665	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ENTH/VHS domain-like	8053993	3000164	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	CTD_bind	e2mowA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: CTD_bind	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.25.40.90	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF04818	CID domain (CID)	CID domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Protein NRD1	protein binding binding protein domain specific binding RNA binding organic cyclic compound binding nucleic acid binding mRNA binding transcription regulatory region nucleic acid binding transcription regulatory region RNA binding regulatory region RNA binding	cellular biosynthetic process mRNA 3'-end processing cellular metabolic process RNA metabolic process primary metabolic process gene expression macromolecule biosynthetic process mRNA processing mRNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process biosynthetic process organic substance biosynthetic process cellular biosynthetic process mRNA 3'-end processing cellular metabolic process RNA metabolic process primary metabolic process gene expression macromolecule biosynthetic process mRNA processing mRNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process biosynthetic process organic substance biosynthetic process nucleic acid catabolic process RNA 3'-end processing metabolic process cellular process RNA processing macromolecule metabolic process CUT metabolic process CUT catabolic process snRNA 3'-end processing snRNA metabolic process ncRNA metabolic process snRNA processing nuclear RNA surveillance catabolic process antisense RNA transcript catabolic process macromolecule catabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process antisense RNA metabolic process RNA surveillance organic substance catabolic process RNA catabolic process sno(s)RNA processing sno(s)RNA 3'-end processing sno(s)RNA metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process mRNA catabolic process regulation of biological process negative regulation of metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic 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 negative regulation of cellular process 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 regulation of cellular biosynthetic process negative regulation of biosynthetic process DNA-templated transcription termination RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II termination of RNA polymerase II transcription, exosome-dependent nucleobase-containing compound biosynthetic process organic cyclic compound biosynthetic process termination of RNA polymerase II transcription tRNA metabolic process tRNA processing tRNA 3'-end processing	protein-containing complex Nrd1 complex membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle cellular anatomical entity
B	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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR048892	Nrd1/Seb1, domain 2	Domain
A	IPR034894	Nrd1/Seb1, RNA recognition motif	Domain
A	IPR008942	ENTH/VHS	Homologous Superfamily
A	IPR000504	RNA recognition motif domain	Domain
A	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
A	IPR006569	CID domain	Domain
A	IPR035979	RNA-binding domain superfamily	Homologous Superfamily
B	IPR043519	Nucleotidyltransferase superfamily	Homologous Superfamily
B	IPR045862	Nucleotidyltransferase Trf4-like	Family
B	IPR002058	PAP/25A-associated	Domain
B	IPR002934	Polymerase, nucleotidyl transferase domain	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.