6DNH | pdb_00006dnh

Cryo-EM structure of human CPSF-160-WDR33-CPSF-30-PAS RNA complex at 3.4 A resolution

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)
C	SCOP2B Superfamily	CCCH zinc finger-like	8051781	3001741	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	CCCH zinc finger-like	8051782	3001741	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)
C	Lys	e6dnhC1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: ADP-ribosylation	T: ADP-ribosylation	F: Lys	ECOD (v294.1)
B	Lys	e6dnhB1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: ADP-ribosylation	T: ADP-ribosylation	F: Lys	ECOD (v294.1)
A	Lys	e6dnhA1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: ADP-ribosylation	T: ADP-ribosylation	F: Lys	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C	PF15663	Zinc-finger containing family (zf-CCCH_3)	Zinc-finger containing family	-	Family
B	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat
A	PF10433	RSE1/DDB1/CPSF1 first beta-propeller (Beta-prop_RSE1_1st)	RSE1/DDB1/CPSF1 first beta-propeller	-	Repeat
A	PF23726	RSE1/DDB1/CPSF1 second beta-propeller (Beta-prop_RSE1_2nd)	RSE1/DDB1/CPSF1 second beta-propeller	-	Repeat
A	PF03178	CPSF A subunit region (CPSF_A)	CPSF A subunit region	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth E]	RNA (5'-R(PAPAPUPAPAPAP*C)-3')	-	-	-
C	Cleavage and polyadenylation specificity factor subunit 4	cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding RNA binding nucleic acid binding DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding	RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process mRNA processing mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process mRNA processing mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process RNA processing	membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle mRNA cleavage and polyadenylation specificity factor complex mRNA cleavage factor complex membrane-enclosed lumen intracellular organelle lumen nucleoplasm membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle mRNA cleavage and polyadenylation specificity factor complex mRNA cleavage factor complex membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
B	pre-mRNA 3' end processing protein WDR33	RNA binding binding nucleic acid binding	mRNA 3'-end processing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process mRNA processing mRNA metabolic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA 3'-end processing mRNA 3'-end processing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process mRNA processing mRNA metabolic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA 3'-end processing metabolic process cellular process RNA processing macromolecule metabolic process developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation cellular response to stimulus response to stimulus DNA metabolic process DNA damage tolerance DNA replication cellular response to stress DNA damage response response to stress	protein-containing complex collagen trimer 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 fibrillar center protein-containing complex collagen trimer 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 fibrillar center organelle membraneless organelle nuclear lumen nuclear protein-containing complex mRNA cleavage and polyadenylation specificity factor complex mRNA cleavage factor complex nucleoplasm
A	Cleavage and polyadenylation specificity factor subunit 1	mRNA 3'-UTR binding RNA binding mRNA 3'-UTR AU-rich region binding binding nucleic acid binding mRNA binding protein binding enzyme binding	co-transcriptional RNA 3'-end processing, cleavage and polyadenylation pathway 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 nucleic acid biosynthetic process biosynthetic process RNA 3'-end processing metabolic process cellular process co-transcriptional RNA 3'-end processing, cleavage and polyadenylation pathway 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 nucleic acid biosynthetic process biosynthetic process RNA 3'-end processing metabolic process cellular process RNA processing macromolecule metabolic process mRNA processing mRNA metabolic process	membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle mRNA cleavage and polyadenylation specificity factor complex mRNA cleavage factor complex membrane-enclosed lumen intracellular organelle lumen nucleoplasm membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle mRNA cleavage and polyadenylation specificity factor complex mRNA cleavage factor complex membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C	IPR036855	Zinc finger, CCCH-type superfamily	Homologous Superfamily
C	IPR041686	Zinc-finger CCCH domain	Domain
C	IPR001878	Zinc finger, CCHC-type	Domain
C	IPR036875	Zinc finger, CCHC-type superfamily	Homologous Superfamily
C	IPR000571	Zinc finger, CCCH-type	Domain
C	IPR045348	CPSF complex subunit CPSF4-like	Family
B	IPR008160	Collagen triple helix repeat	Repeat
B	IPR045245	Pre-mRNA 3' end processing protein Pfs2-like	Family
B	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
B	IPR001680	WD40 repeat	Repeat
B	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A	IPR050358	RSE1/DDB1/CPSF1	Family
A	IPR018846	RSE1/DDB1/CPSF1, first beta-propeller	Domain
A	IPR058543	RSE1/DDB1/CPSF1, second beta-propeller	Domain
A	IPR004871	RSE1/DDB1/CPSF1, C-terminal	Domain
A	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C	Pharos: O95639	attention deficit hyperactivity disorder, inattentive type
B	Pharos: Q9C0J8	atypical teratoid rhabdoid tumor large cell medulloblastoma malignant glioma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia tuberculosis breast cancer lung adenocarcinoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma psoriasis glioblastoma malignant ependymoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm atypical teratoid rhabdoid tumor large cell medulloblastoma malignant glioma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia tuberculosis breast cancer lung adenocarcinoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma psoriasis glioblastoma malignant ependymoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm subependymal giant cell astrocytoma
A	Pharos: Q10570	Disease Exacerbation gastric neoplasm hereditary diffuse gastric adenocarcinoma osteosarcoma gastric cancer lung cancer

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.