Annotations: 5CD8

Crystal structure of the NTD of Drosophila Oskar protein

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	Ribosomal_L24e	e5cd8F1	A: alpha arrays	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: Ribosomal_L24e	ECOD (v295.2)
E	Ribosomal_L24e	e5cd8E1	A: alpha arrays	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: Ribosomal_L24e	ECOD (v295.2)
D	Ribosomal_L24e	e5cd8D1	A: alpha arrays	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: Ribosomal_L24e	ECOD (v295.2)
C	Ribosomal_L24e	e5cd8C1	A: alpha arrays	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: Ribosomal_L24e	ECOD (v295.2)
B	Ribosomal_L24e	e5cd8B1	A: alpha arrays	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: Ribosomal_L24e	ECOD (v295.2)
A	Ribosomal_L24e	e5cd8A1	A: alpha arrays	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: Ribosomal_L24e	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF12872	OST-HTH/LOTUS domain (OST-HTH)	OST-HTH/LOTUS domain	A predicted RNA-binding domain found in insect Oskar and vertebrate TDRD5/TDRD7 proteins that nucleate or organize structurally related ribonucleoprotein (RNP) complexes, the polar granule and nuage, is poorly understood [1][2]. The domain adopts the ...	A predicted RNA-binding domain found in insect Oskar and vertebrate TDRD5/TDRD7 proteins that nucleate or organize structurally related ribonucleoprotein (RNP) complexes, the polar granule and nuage, is poorly understood [1][2]. The domain adopts the winged helix-turn- helix fold and bind RNA with a potential specificity for dsRNA [1].In eukaryotes this domain is often combined in the same polypeptide with protein-protein- or lipid- interaction domains that might play a role in anchoring these proteins to specific cytoskeletal structures. Thus, proteins with this domain might have a key role in the recognition and localization of dsRNA, including miRNAs, rasiRNAs and piRNAs hybridized to their targets. In other cases, this domain is fused to ubiquitin-binding, E3 ligase and ubiquitin-like domains indicating a previously under-appreciated role for ubiquitination in regulating the assembly and stability of nuage-like RNP complexes. Both bacteria and eukaryotes encode a conserved family of proteins that combines this predicted RNA-binding domain with a previously uncharacterized RNase domain belonging to the superfamily that includes the 5'->3' nucleases, PIN and NYN domains [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Maternal effect protein oskar	RNA binding binding nucleic acid binding mRNA binding	regulation of cellular process catabolic process negative regulation of biological process RNA metabolic process macromolecule catabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process regulation of mRNA catabolic process negative regulation of cellular process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process regulation of cellular process catabolic process negative regulation of biological process RNA metabolic process macromolecule catabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process regulation of mRNA catabolic process negative regulation of cellular process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process mRNA catabolic process regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process regulation of catabolic process gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound catabolic process regulation of mRNA stability regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of RNA stability nucleic acid catabolic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of mRNA metabolic process regulation of metabolic process developmental process sexual reproduction cellular developmental process reproductive process oogenesis multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction female gamete generation gamete generation cell differentiation anatomical structure development germ cell development multicellular organism development multicellular organismal process segmentation pattern specification process regionalization blastoderm segmentation anterior/posterior pattern specification anterior/posterior axis specification, embryo embryo development oocyte development tripartite regional subdivision cellular component biogenesis cellular component organization embryonic axis specification germ plasm assembly cellular component assembly anterior/posterior axis specification cellular component organization or biogenesis cell maturation embryonic pattern specification oocyte axis specification oocyte construction oocyte anterior/posterior axis specification cytoplasm organization developmental maturation anatomical structure maturation maternal determination of anterior/posterior axis, embryo oocyte differentiation axis specification localization intracellular protein localization germ plasm protein localization macromolecule localization zygotic determination of anterior/posterior axis, embryo posterior abdomen determination response to light stimulus behavior response to stimulus visual behavior response to radiation response to abiotic stimulus system process learning learning or memory nervous system process visual learning cognition associative learning germ plasm RNA localization germ plasm mRNA localization RNA localization intracellular mRNA localization involved in anterior/posterior axis specification intracellular mRNA localization intracellular mRNA localization involved in pattern specification process long-term memory memory organelle organization actin cytoskeleton organization cortical actin cytoskeleton organization cortical cytoskeleton organization actin filament-based process cytoskeleton organization P granule organization membraneless organelle assembly P granule assembly organelle assembly cellularization pole cell formation anatomical structure morphogenesis pole cell development anatomical structure formation involved in morphogenesis microtubule cytoskeleton organization establishment or maintenance of cell polarity establishment or maintenance of microtubule cytoskeleton polarity establishment or maintenance of cytoskeleton polarity oocyte microtubule cytoskeleton polarization microtubule-based process oocyte microtubule cytoskeleton organization protein biosynthetic process protein metabolic process regulation of oskar mRNA translation regulation of protein metabolic process translation regulation of translation protein localization to organelle protein localization to nucleus thermosensory behavior response to temperature stimulus	intracellular anatomical structure P granule cytoplasmic ribonucleoprotein granule germ plasm intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cell periphery cell cortex intracellular anatomical structure P granule cytoplasmic ribonucleoprotein granule germ plasm intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cell periphery cell cortex membrane-bounded organelle nucleus germ cell nucleus intracellular membrane-bounded organelle posterior cell cortex cell cortex region cytoplasmic region endosome intracellular vesicle endomembrane system cytoplasmic vesicle vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR033447	OSK domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR036514	SGNH hydrolase superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR025605	OST-HTH/LOTUS domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR041966	LOTUS-like domain	Homologous Superfamily

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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.

5CD8 | pdb_00005cd8

Crystal structure of the NTD of Drosophila Oskar protein

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage