4PKD

U1-70k in complex with U1 snRNA stem-loops 1 and U1-A RRM in complex with stem-loop 2

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
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	Canonical RBD	8061980	4000236	SCOP2 (2022-06-29)
B	SCOP2 Family	Canonical RBD	8088185	4000236	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	RNA-binding domain, RBD	8061981	3000110	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	RNA-binding domain, RBD	8088186	3000110	SCOP2 (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	RRM_1_2	e4pkdB1	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_2	ECOD (1.6)
B	RRM_1_6	e4pkdB2	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_6	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	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	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 V]	U1 snRNA stem-loops 1 and 2 (55-MER)	-	-	-
B	U1 small nuclear ribonucleoprotein A,U1 small nuclear ribonucleoprotein 70 kDa	RNA binding snRNA binding binding nucleic acid binding U1 snRNA binding mRNA binding	RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process mRNA processing mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process RNA splicing, via transesterification reactions mRNA splicing, via spliceosome RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process mRNA processing mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process RNA splicing, via transesterification reactions mRNA splicing, via spliceosome metabolic process cellular process RNA splicing, via transesterification reactions with bulged adenosine as nucleophile macromolecule metabolic process RNA processing regulation of biological process protein refolding regulation of cellular process regulation of protein refolding biological regulation negative regulation of biological process protein maturation protein folding regulation of protein folding negative regulation of protein folding negative regulation of protein refolding negative regulation of cellular process protein metabolic process regulation of ATP-dependent activity regulation of molecular function regulation of primary metabolic process regulation of biosynthetic process regulation of macromolecule metabolic process regulation of RNA splicing regulation of gene expression regulation of macromolecule biosynthetic process regulation of metabolic process regulation of mRNA splicing, via spliceosome positive regulation of macromolecule biosynthetic process positive regulation of metabolic process regulation of RNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of mRNA metabolic process positive regulation of RNA metabolic process positive regulation of mRNA processing positive regulation of mRNA splicing, via spliceosome positive regulation of biological process positive regulation of biosynthetic process positive regulation of cellular process regulation of mRNA processing positive regulation of gene expression regulation of mRNA metabolic process positive regulation of RNA splicing catabolic process autophagy regulation of autophagy macromolecule catabolic process negative regulation of protein catabolic process chaperone-mediated autophagy process utilizing autophagic mechanism negative regulation of protein metabolic process negative regulation of macromolecule metabolic process negative regulation of catabolic process negative regulation of metabolic process regulation of protein metabolic process protein catabolic process regulation of catabolic process regulation of chaperone-mediated autophagy negative regulation of chaperone-mediated autophagy negative regulation of autophagy regulation of protein catabolic process	membrane-bounded organelle spliceosomal snRNP complex protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex Sm-like protein family complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure small nuclear ribonucleoprotein complex organelle ribonucleoprotein complex U1 snRNP membrane-bounded organelle spliceosomal snRNP complex protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex Sm-like protein family complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure small nuclear ribonucleoprotein complex organelle ribonucleoprotein complex U1 snRNP spliceosomal complex membrane-enclosed lumen intracellular organelle lumen nuclear speck nuclear body nucleoplasm organelle lumen nuclear lumen U2-type spliceosomal complex prespliceosome U2-type prespliceosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
B	IPR034407	U1 small nuclear ribonucleoprotein A, RNA recognition motif 1	Domain
B	IPR034409	U1 small nuclear ribonucleoprotein A, RNA recognition motif 2	Domain
B	IPR000504	RNA recognition motif domain	Domain
B	IPR035979	RNA-binding domain superfamily	Homologous Superfamily
B	IPR000504	RNA recognition motif domain	Domain
B	IPR034143	snRNP70, RNA recognition motif	Domain
B	IPR051183	U1 snRNP 70 kDa and U11/U12 snRNP 35 kDa	Family
B	IPR022023	U1 small nuclear ribonucleoprotein of 70kDa N-terminal	Domain
B	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
B	IPR035979	RNA-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: P08621	Alcoholic Intoxication, Chronic malignant ependymoma osteosarcoma Pick disease spina bifida astrocytic tumor mixed connective tissue disease ovarian cancer progressive supranuclear palsy systemic sclerosis lupus erythematosus myositis pancreatic ductal adenocarcinoma psoriasis

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.