1G2E | pdb_00001g2e

CRYSTAL STRUCTURE OF HUD AND AU-RICH ELEMENT OF THE TUMOR NECROSIS FACTOR ALPHA RNA

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B [auth A]	d1g2ea1	Alpha and beta proteins (a+b)	Ferredoxin-like	RNA-binding domain, RBD, aka RNA recognition motif (RRM)	Canonical RBD	Hu antigen D (Hud)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth A]	SCOP2B Superfamily	RNA-binding domain, RBD	8035343	3000110	SCOP2B (2022-06-29)
B [auth A]	SCOP2B Superfamily	RNA-binding domain, RBD	8035339	3000110	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)
B [auth A]	RRM_1_1	e1g2eA2	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_1	ECOD (1.6)
B [auth A]	RRM_1	e1g2eA1	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth A]	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth A]	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 B]	5'-R(PUPAPUPUPUPAPUPUPUPA)-3'	-	-	-
B [auth A]	PARANEOPLASTIC ENCEPHALOMYELITIS ANTIGEN HUD	pre-mRNA binding RNA binding pre-mRNA intronic binding binding pre-mRNA intronic pyrimidine-rich binding nucleic acid binding mRNA 3'-UTR binding mRNA binding mRNA 3'-UTR AU-rich region binding poly(A) binding poly-purine tract binding single-stranded RNA binding	behavior multicellular organismal process locomotory behavior developmental process anatomical structure development regeneration head development cellular developmental process forebrain generation of neurons forebrain development animal organ development brain development nervous system development generation of neurons behavior multicellular organismal process locomotory behavior developmental process anatomical structure development regeneration head development cellular developmental process forebrain generation of neurons forebrain development animal organ development brain development nervous system development generation of neurons central nervous system neuron differentiation multicellular organism development neurogenesis central nervous system development neuron differentiation cell differentiation cellular process cerebral cortex neuron differentiation forebrain neuron differentiation system development regulation of cellular process 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 post-transcriptional regulation of gene expression 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 regulation of biological quality RNA catabolic process mRNA stabilization mRNA catabolic process regulation of biological 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 3'-UTR-mediated mRNA stabilization regulation of metabolic process negative regulation of RNA metabolic process catabolic process positive regulation of biological process RNA metabolic process macromolecule catabolic process negative regulation of mRNA metabolic process 3'-UTR-mediated mRNA stabilization 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 biological regulation positive regulation of 3'-UTR-mediated mRNA stabilization 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 mRNA stability RNA stabilization negative regulation of biosynthetic process positive regulation of gene expression regulation of RNA stability regulation of mRNA metabolic process cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis cellular component organization cell projection morphogenesis neuron projection morphogenesis dendrite development cellular component organization or biogenesis plasma membrane bounded cell projection organization dendrite morphogenesis cell morphogenesis involved in neuron differentiation anatomical structure morphogenesis neuron development nucleobase-containing compound biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process RNA processing mRNA processing cellular response to endogenous stimulus cellular response to growth factor stimulus response to stimulus response to endogenous stimulus cellular response to nerve growth factor stimulus response to nerve growth factor response to growth factor RNA splicing regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization regulation of developmental process positive regulation of developmental process positive regulation of neuron projection development positive regulation of cell projection organization regulation of cell projection organization positive regulation of dendrite development regulation of dendrite development regulation of plasma membrane bounded cell projection organization system process learning learning or memory nervous system process cognition associative learning protein metabolic process regulation of protein metabolic process regulation of translation at postsynapse regulation of translation at synapse translation regulation of translation response to chemical response to oxygen-containing compound response to nitrogen compound response to cocaine response to alkaloid cellular response to stimulus cellular response to stress response to stress response to endoplasmic reticulum stress	somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body membrane-bounded organelle intracellular organelle organelle envelope intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body membrane-bounded organelle intracellular organelle organelle envelope intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection cytoplasm growth cone axon distal axon site of polarized growth membraneless organelle intracellular membraneless organelle ribosome synapse cell junction glutamatergic synapse apical dendrite protein-containing complex ribonucleoprotein complex postsynapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth A]	IPR006548	Splicing factor ELAV/Hu	Family
B [auth A]	IPR000504	RNA recognition motif domain	Domain
B [auth A]	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
B [auth A]	IPR002343	Paraneoplastic encephalomyelitis antigen	Family
B [auth A]	IPR034918	HuD, RNA recognition motif 3	Domain
B [auth A]	IPR035979	RNA-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth A]	Pharos: P26378	astrocytic tumor endogenous depression lung carcinoma medulloblastoma pilocytic astrocytoma attention deficit hyperactivity disorder, inattentive type glioblastoma malignant ependymoma oligodendroglioma atypical teratoid rhabdoid tumor large cell medulloblastoma malignant glioma ovarian cancer

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.