6G2K | pdb_00006g2k

Structure of HuR RRM3 in complex with RNA (UUUUUU)

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
B [auth A]	TIP49_C	e6g2kA1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: TIP49_C	ECOD (develop294)
C [auth B]	TIP49_C	e6g2kB1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: TIP49_C	ECOD (develop294)
D [auth C]	TIP49_C	e6g2kC1	A: alpha bundles	X: PriB N-terminal domain-like	H: HTH	T: SH3	F: TIP49_C	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth A], C [auth B], D [auth C]	PF00076	RNA recognition motif (RRM_1)	RNA recognition motif	The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ...	The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (Swiss:P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (Swiss:P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth R]	RNA (5'-R(PUPUPUPUPUPU)-3')	-	-	-
B [auth A], C [auth B], D [auth C]	ELAV-like protein 1	RNA binding binding lncRNA binding nucleic acid binding double-stranded RNA binding mRNA 3'-UTR binding mRNA binding mRNA 3'-UTR AU-rich region binding regulatory RNA binding miRNA binding identical protein binding protein binding protein homodimerization activity protein dimerization activity RNA binding binding lncRNA binding nucleic acid binding double-stranded RNA binding mRNA 3'-UTR binding mRNA binding mRNA 3'-UTR AU-rich region binding regulatory RNA binding miRNA binding identical protein binding protein binding protein homodimerization activity protein dimerization activity kinase binding enzyme binding protein kinase binding	developmental process multicellular organismal process regulation of biological process regulation of developmental process biological regulation regulation of stem cell population maintenance regulation of multicellular organismal process maintenance of cell number stem cell population maintenance regulation of cellular process reactive oxygen species metabolic process positive regulation of biological process regulation of superoxide metabolic process positive regulation of reactive oxygen species metabolic process developmental process multicellular organismal process regulation of biological process regulation of developmental process biological regulation regulation of stem cell population maintenance regulation of multicellular organismal process maintenance of cell number stem cell population maintenance regulation of cellular process reactive oxygen species metabolic process positive regulation of biological process regulation of superoxide metabolic process positive regulation of reactive oxygen species metabolic process superoxide metabolic process positive regulation of metabolic process superoxide anion generation metabolic process cellular process positive regulation of superoxide anion generation regulation of superoxide anion generation regulation of metabolic process regulation of reactive oxygen species metabolic process positive regulation of cellular process negative regulation of biological process positive regulation of macromolecule biosynthetic process regulation of miRNA-mediated gene silencing post-transcriptional regulation of gene expression negative regulation of post-transcriptional gene silencing by regulatory ncRNA regulation of gene silencing by regulatory ncRNA positive regulation of biosynthetic process negative regulation of cellular process regulation of post-transcriptional gene silencing by regulatory ncRNA positive regulation of macromolecule metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of metabolic process negative regulation of gene silencing by regulatory ncRNA regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulatory ncRNA-mediated post-transcriptional gene silencing regulatory ncRNA-mediated gene silencing miRNA-mediated post-transcriptional gene silencing regulation of gene expression negative regulation of gene expression biosynthetic process regulation of post-transcriptional gene silencing negative regulation of biosynthetic process positive regulation of gene expression negative regulation of miRNA-mediated gene silencing negative regulation of macromolecule biosynthetic process post-transcriptional gene silencing regulation of macromolecule biosynthetic process macromolecule metabolic process negative regulation of post-transcriptional gene silencing cell population proliferation establishment of protein localization cellular localization nucleocytoplasmic transport transport nuclear transport intracellular transport protein localization to nucleus establishment of localization localization import into nucleus establishment of protein localization to organelle protein transport establishment of localization in cell macromolecule localization protein localization to organelle protein import into nucleus intracellular protein localization intracellular protein transport response to hexose response to monosaccharide response to carbohydrate response to stimulus response to glucose response to chemical response to oxygen-containing compound regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of RNA metabolic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA stabilization mRNA catabolic process primary metabolic process nucleobase-containing compound catabolic process nucleic acid catabolic 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 negative regulation of catabolic process negative regulation of mRNA catabolic process negative regulation of RNA catabolic process regulation of catabolic process mRNA metabolic process nucleic acid metabolic process regulation of mRNA stability RNA stabilization regulation of RNA stability regulation of mRNA metabolic process positive regulation of protein metabolic process positive regulation of translation protein biosynthetic process protein metabolic process regulation of protein metabolic process translation regulation of translation lncRNA-mediated post-transcriptional gene silencing positive regulation of mRNA metabolic process positive regulation of RNA metabolic process mRNA destabilization RNA destabilization positive regulation of catabolic process positive regulation of mRNA catabolic process 3'-UTR-mediated mRNA stabilization cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis positive regulation of autophagy autophagy regulation of autophagy process utilizing autophagic mechanism vacuole organization regulation of cellular component size macroautophagy positive regulation of autophagosome size autophagosome organization organelle organization regulation of autophagosome size regulation of anatomical structure size	intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cytoplasmic stress granule membrane cytosol membrane-bounded organelle intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cytoplasmic stress granule membrane cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen synapse cell junction glutamatergic synapse cytoplasmic vesicle intracellular vesicle vesicle sarcoplasm P-body protein-containing complex ribonucleoprotein complex postsynapse endoplasmic reticulum endomembrane system

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth A], C [auth B], D [auth C]	IPR034996	HuR, RNA recognition motif 2	Domain
B [auth A], C [auth B], D [auth C]	IPR006548	Splicing factor ELAV/Hu	Family
B [auth A], C [auth B], D [auth C]	IPR000504	RNA recognition motif domain	Domain
B [auth A], C [auth B], D [auth C]	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
B [auth A], C [auth B], D [auth C]	IPR002343	Paraneoplastic encephalomyelitis antigen	Family
B [auth A], C [auth B], D [auth C]	IPR035979	RNA-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth A], C [auth B], D [auth C]	Pharos: Q15717	endometriosis astrocytic tumor breast carcinoma glioblastoma lung cancer malignant glioma ovarian cancer primitive neuroectodermal tumor atypical teratoid rhabdoid tumor Endometrioma large cell medulloblastoma lymphoplasmacytic lymphoma medulloblastoma pilocytic astrocytoma subependymal giant cell astrocytoma endometriosis astrocytic tumor breast carcinoma glioblastoma lung cancer malignant glioma ovarian cancer primitive neuroectodermal tumor atypical teratoid rhabdoid tumor Endometrioma large cell medulloblastoma lymphoplasmacytic lymphoma medulloblastoma pilocytic astrocytoma subependymal giant cell astrocytoma breast cancer lung adenocarcinoma malignant ependymoma osteosarcoma plasma cell myeloma

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.