3KBL

Crystal structure of the GLD-1 homodimerization domain from Caenorhabditis elegans N169A mutant at 2.28 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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Homodimerisation domain of STAR-like	8052675	3002134	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Homodimerisation domain of STAR-like	8052675	3002134	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Homodimerisation domain of STAR-like	8052675	3002134	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Homodimerisation domain of STAR-like	8052675	3002134	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	STAR_dimer	e3kblA1	A: alpha duplicates or obligate multimers	X: Qua1 (From Topology)	H: Qua1 (From Topology)	T: Qua1	F: STAR_dimer	ECOD (1.6)
B	STAR_dimer	e3kblB1	A: alpha duplicates or obligate multimers	X: Qua1 (From Topology)	H: Qua1 (From Topology)	T: Qua1	F: STAR_dimer	ECOD (1.6)
C	STAR_dimer	e3kblC1	A: alpha duplicates or obligate multimers	X: Qua1 (From Topology)	H: Qua1 (From Topology)	T: Qua1	F: STAR_dimer	ECOD (1.6)
D	STAR_dimer	e3kblD1	A: alpha duplicates or obligate multimers	X: Qua1 (From Topology)	H: Qua1 (From Topology)	T: Qua1	F: STAR_dimer	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.5.4010	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
B	1.20.5.4010	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
C	1.20.5.4010	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
D	1.20.5.4010	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF16544	Homodimerisation region of STAR domain protein (STAR_dimer)	Homodimerisation region of STAR domain protein	This family is the homodimerisation domain of quaking proteins. Quaking-dimer is a helix-turn-helix dimer with an additional helix in the turn region. Dimerisation is required for adequate RNA-binding. Quaking is a prototypical member of the STAR (si ...	This family is the homodimerisation domain of quaking proteins. Quaking-dimer is a helix-turn-helix dimer with an additional helix in the turn region. Dimerisation is required for adequate RNA-binding. Quaking is a prototypical member of the STAR (signal transducer and activator of RNA) protein family, which plays key roles in post-transcriptional gene regulation by controlling mRNA translation, stability and splicing [1]. STAR_dimer is the homodimerisation domain, Qua1 of the STAR domain of a series of proteins referred to as STAR/GSG, or Signal Transduction and Activation of RNA/GRP33, Sam68, GLD-1 family. These are conserved in higher eukaryotes and are RNA-binding transcriptional regulators. The STAR domain is a KH domain flanked by two homologous regions, Qua1 and Qua2. Qua1, this family, is the homodimerisation domain, and the KH plus Qua2 is the RNA-binding region [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Female germline-specific tumor suppressor gld-1	mRNA 3'-UTR binding RNA binding binding organic cyclic compound binding nucleic acid binding mRNA binding single-stranded RNA binding mRNA 5'-UTR binding	multicellular organismal process regulation of developmental process regulation of gonad development regulation of reproductive process reproductive process sex differentiation positive regulation of biological process development of primary female sexual characteristics developmental process involved in reproduction positive regulation of developmental process multicellular organism development development of primary sexual characteristics regulation of female gonad development anatomical structure development multicellular organismal process regulation of developmental process regulation of gonad development regulation of reproductive process reproductive process sex differentiation positive regulation of biological process development of primary female sexual characteristics developmental process involved in reproduction positive regulation of developmental process multicellular organism development development of primary sexual characteristics regulation of female gonad development anatomical structure development reproductive structure development regulation of multicellular organismal process system development positive regulation of reproductive process developmental process regulation of biological process regulation of multicellular organismal development gonad development reproductive system development female gonad development biological regulation animal organ development female sex differentiation positive regulation of gonad development positive regulation of multicellular organismal process positive regulation of female gonad development regulation of cellular process nuclear-transcribed mRNA catabolic process, nonsense-mediated decay negative regulation of biological process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process regulation of RNA metabolic process negative regulation of nucleobase-containing compound metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process RNA catabolic process mRNA catabolic process negative regulation of metabolic process primary metabolic process nucleobase-containing compound catabolic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process nucleic acid catabolic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process negative regulation of RNA metabolic process catabolic process RNA metabolic process macromolecule catabolic process negative regulation of mRNA metabolic process regulation of mRNA catabolic process positive regulation of biosynthetic process negative regulation of cellular process positive regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of catabolic process nuclear-transcribed mRNA catabolic process negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay negative regulation of mRNA catabolic process negative regulation of RNA catabolic process regulation of macromolecule metabolic process regulation of catabolic process gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay negative regulation of biosynthetic process positive regulation of gene expression cellular process regulation of mRNA metabolic process post-transcriptional regulation of gene expression negative regulation of translation protein metabolic process negative regulation of protein metabolic process regulation of protein metabolic process translation regulation of translation sexual reproduction cellular developmental process oogenesis multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism female gamete generation gamete generation cell differentiation germ cell development cell population proliferation germ cell proliferation regulation of germ cell proliferation regulation of cell population proliferation oocyte fate determination cell fate determination cell fate commitment regulation of mRNA splicing, via spliceosome mRNA processing RNA biosynthetic process nucleic acid biosynthetic process RNA processing regulation of mRNA processing RNA splicing nucleobase-containing compound biosynthetic process regulation of RNA splicing RNA splicing, via transesterification reactions mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile regulation of oogenesis regulation of cell differentiation regulation of cell development oocyte development positive regulation of cell differentiation positive regulation of oocyte development regulation of oocyte development positive regulation of cell development oocyte differentiation meiotic cell cycle cell cycle	intracellular anatomical structure P granule cytoplasmic ribonucleoprotein granule germ plasm intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle pole plasm membraneless organelle cytoplasm supramolecular complex cytosol intracellular anatomical structure P granule cytoplasmic ribonucleoprotein granule germ plasm intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle pole plasm membraneless organelle cytoplasm supramolecular complex cytosol membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR032377	STAR protein, homodimerisation region	Domain
A, B, C, D	IPR004087	K Homology domain	Domain
A, B, C, D	IPR036612	K Homology domain, type 1 superfamily	Homologous Superfamily
A, B, C, D	IPR045071	KH domain-containing BBP-like	Family
A, B, C, D	IPR004088	K Homology domain, type 1	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.