3MDG | pdb_00003mdg

Crystal Structure of the 25kDa Subunit of Human Cleavage factor Im in complex with RNA UUGUAU

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Glu_cyclase_2	e3mdgA1	A: a/b three-layered sandwiches	X: jelly-roll	H: Galactose-binding domain-like	T: Galactose-binding domain-like	F: Glu_cyclase_2	ECOD (v294.1)
B	Glu_cyclase_2	e3mdgB1	A: a/b three-layered sandwiches	X: jelly-roll	H: Galactose-binding domain-like	T: Galactose-binding domain-like	F: Glu_cyclase_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)
B	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF13869	Nucleotide hydrolase (NUDIX_2)	Nucleotide hydrolase	Nudix hydrolases are found in all classes of organism and hydrolyse a wide range of organic pyrophosphates, including nucleoside di- and triphosphates, di-nucleoside and diphospho-inositol polyphosphates, nucleotide sugars and RNA caps, with varying ...	Nudix hydrolases are found in all classes of organism and hydrolyse a wide range of organic pyrophosphates, including nucleoside di- and triphosphates, di-nucleoside and diphospho-inositol polyphosphates, nucleotide sugars and RNA caps, with varying degrees of substrate specificity.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C	RNA (5'-R(UPUPGPUPAPU)-3')	-	-	-
A, B	Cleavage and polyadenylation specificity factor subunit 5	histone deacetylase binding protein binding binding enzyme binding chromatin binding mRNA 3'-UTR binding RNA binding mRNA 3'-UTR AU-rich region binding nucleic acid binding mRNA binding identical protein binding protein homodimerization activity protein dimerization activity	protein-containing complex organization protein heterotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly cellular process cellular component organization or biogenesis protein heterooligomerization developmental process cellular developmental process cell differentiation protein-containing complex organization protein heterotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly cellular process cellular component organization or biogenesis protein heterooligomerization developmental process cellular developmental process cell differentiation 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 mRNA alternative polyadenylation RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA 3'-end processing metabolic process RNA processing macromolecule metabolic process regulation of biosynthetic process regulation of biological process regulation of cellular process biological regulation regulation of macromolecule metabolic process post-transcriptional regulation of gene expression regulation of gene expression regulation of macromolecule biosynthetic process regulation of metabolic process regulation of developmental process positive regulation of biological process regulation of cell differentiation positive regulation of developmental process positive regulation of stem cell differentiation stem cell differentiation positive regulation of cell differentiation regulation of stem cell differentiation positive regulation of cellular process co-transcriptional RNA 3'-end processing, cleavage and polyadenylation pathway co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway regulation of pro-B cell differentiation positive regulation of lymphoid progenitor cell differentiation cell development regulation of lymphoid progenitor cell differentiation anatomical structure development regulation of hematopoietic progenitor cell differentiation positive regulation of hematopoietic progenitor cell differentiation hemopoiesis positive regulation of pro-B cell differentiation pro-B cell differentiation lymphoid progenitor cell differentiation hematopoietic progenitor cell differentiation	membrane-bounded organelle intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure organelle nucleus nuclear protein-containing complex mRNA cleavage factor complex intracellular membrane-bounded organelle membrane-enclosed lumen intracellular membraneless organelle intracellular organelle lumen ribonucleoprotein granule membrane-bounded organelle intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure organelle nucleus nuclear protein-containing complex mRNA cleavage factor complex intracellular membrane-bounded organelle membrane-enclosed lumen intracellular membraneless organelle intracellular organelle lumen ribonucleoprotein granule nuclear body nucleoplasm organelle lumen membraneless organelle supramolecular complex paraspeckles nuclear ribonucleoprotein granule nuclear lumen centrosome microtubule organizing center cytoskeleton microtubule cytoskeleton centriolar satellite cytoplasm mRNA cleavage and polyadenylation specificity factor complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR015797	NUDIX hydrolase-like domain superfamily	Homologous Superfamily
A, B	IPR016706	Cleavage/polyadenylation specificity factor subunit 5	Family
A, B	IPR000086	NUDIX hydrolase domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: O43809	psoriasis Adenocarcinoma of Lung breast cancer glioblastoma lung adenocarcinoma malignant mesothelioma non-small cell lung carcinoma Pick disease Alzheimer disease juvenile dermatomyositis malignant ependymoma medulloblastoma ovarian cancer primitive neuroectodermal tumor atypical teratoid rhabdoid tumor psoriasis Adenocarcinoma of Lung breast cancer glioblastoma lung adenocarcinoma malignant mesothelioma non-small cell lung carcinoma Pick disease Alzheimer disease juvenile dermatomyositis malignant ependymoma medulloblastoma ovarian cancer primitive neuroectodermal tumor atypical teratoid rhabdoid tumor Gaucher disease large cell medulloblastoma malignant glioma myopathy pancreatic intraductal papillary-mucinous neoplasm

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.