3K4E | pdb_00003k4e

Puf3 RNA binding domain bound to Cox17 RNA 3' UTR recognition sequence site A

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	SCOP2B Superfamily	ARM repeat-like	8085033	3000116	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ARM repeat-like	8085033	3000116	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	ARM repeat-like	8085033	3000116	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)
A	Abhydrolase_3	e3k4eA1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Abhydrolase_3	ECOD (v294.1)
C	Abhydrolase_3	e3k4eC1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Abhydrolase_3	ECOD (v294.1)
E	Abhydrolase_3	e3k4eE1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Abhydrolase_3	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (4.3.0)
C	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (4.3.0)
E	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C, E	PF00806	Pumilio-family RNA binding repeat (PUF)	Pumilio-family RNA binding repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D, F	RNA (5'-R(PCPUPUPGPUPAPUPAPUPA)-3')	-	-	-
A, C, E	mRNA-binding protein PUF3	RNA binding binding nucleic acid binding mRNA binding mRNA 3'-UTR binding	regulation of cellular process positive regulation of protein metabolic process positive regulation of biological process positive regulation of translation protein biosynthetic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of cellular process positive regulation of protein metabolic process positive regulation of biological process positive regulation of translation protein biosynthetic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression regulation of translation regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process catabolic process negative regulation of biological process RNA metabolic process macromolecule catabolic process nucleobase-containing compound metabolic process negative regulation of cellular process RNA catabolic process negative regulation of macromolecule metabolic process mRNA catabolic process nuclear-transcribed mRNA catabolic process negative regulation of metabolic process mRNA metabolic process nucleic acid metabolic process nucleobase-containing compound catabolic process negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process nucleic acid catabolic process localization macromolecule localization intracellular mRNA localization RNA localization mitochondrion localization organelle localization small molecule biosynthetic process regulation of ketone biosynthetic process ketone metabolic process ubiquinone biosynthetic process quinone metabolic process regulation of ketone metabolic process regulation of small molecule metabolic process quinone biosynthetic process small molecule metabolic process ubiquinone metabolic process regulation of ubiquinone biosynthetic process ketone biosynthetic process aerobic respiration cellular respiration energy derivation by oxidation of organic compounds generation of precursor metabolites and energy cellular response to stimulus cellular response to nutrient levels response to nutrient levels response to stimulus cellular response to stress response to stress response to starvation cellular response to glucose starvation cellular response to starvation cellular component organization organelle organization cellular component organization or biogenesis mitochondrion organization regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality positive regulation of mRNA metabolic process positive regulation of RNA metabolic process nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay mRNA destabilization regulation of mRNA catabolic process RNA destabilization regulation of catabolic process positive regulation of catabolic process regulation of mRNA stability positive regulation of mRNA catabolic process regulation of RNA stability regulation of mRNA metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle mitochondrial membrane mitochondrion cytoplasmic side of membrane membrane organelle outer membrane cytoplasmic side of mitochondrial outer membrane intracellular membrane-bounded organelle side of membrane intracellular organelle organelle envelope cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle mitochondrial membrane mitochondrion cytoplasmic side of membrane membrane organelle outer membrane cytoplasmic side of mitochondrial outer membrane intracellular membrane-bounded organelle side of membrane intracellular organelle organelle envelope bounding membrane of organelle organelle mitochondrial envelope mitochondrial outer membrane outer membrane organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E	IPR016024	Armadillo-type fold	Homologous Superfamily
A, C, E	IPR033712	Pumilio, RNA binding domain	Domain
A, C, E	IPR011989	Armadillo-like helical	Homologous Superfamily
A, C, E	IPR001313	Pumilio RNA-binding repeat	Repeat
A, C, E	IPR033133	Pumilio homology domain	Domain

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.