2M09

Structure, phosphorylation and U2AF65 binding of the Nterminal Domain of splicing factor 1 during 3 splice site Recognition

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
A	SCOP2B Superfamily	SF1 HH domain-like	8089885	3002399	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	PF16275	e2m09A1	A: extended segments	X: Splicing factor 1 N-terminal domain (From Topology)	H: Splicing factor 1 N-terminal domain (From Topology)	T: Splicing factor 1 N-terminal domain	F: PF16275	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF16275	Splicing factor 1 helix-hairpin domain (SF1-HH)	Splicing factor 1 helix-hairpin domain	This domain, approximately 100 residues in length, is mainly found in splicing factor 1 from yeast to human [1]. It is a helix-hairpin domain, which forms a secondary, hydrophobic interface with U2AF65(UHM) to lock the orientation of the two subunit ...	This domain, approximately 100 residues in length, is mainly found in splicing factor 1 from yeast to human [1]. It is a helix-hairpin domain, which forms a secondary, hydrophobic interface with U2AF65(UHM) to lock the orientation of the two subunits, which is essential for cooperative formation of the ternary SF1-U2AF65-RNA complex [2]. In this domain, it contains a highly conserved SPSP motif in its C terminal and phophorylation of SPSP motif induces a disorder-to-order transition within a novel SF1/U2AF65 interface, indicating a phosphorylation-dependent control of pre-mRNA splicing factors [3].	Domain
A	PF00013	KH domain (KH_1)	KH domain	KH motifs bind RNA in vitro. Autoantibodies to Nova, a KH domain protein, cause paraneoplastic opsoclonus ataxia.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Splicing factor 1	RNA binding binding organic cyclic compound binding nucleic acid binding transcription corepressor activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity mRNA binding cation binding transition metal ion binding zinc ion binding ion binding RNA binding binding organic cyclic compound binding nucleic acid binding transcription corepressor activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity mRNA binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding identical protein binding protein binding	regulation of biosynthetic process regulation of steroid biosynthetic process regulation of biological process regulation of lipid metabolic process steroid metabolic process regulation of steroid metabolic process biological regulation lipid biosynthetic process primary metabolic process regulation of primary metabolic process organic cyclic compound metabolic process organic substance metabolic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process regulation of biosynthetic process regulation of steroid biosynthetic process regulation of biological process regulation of lipid metabolic process steroid metabolic process regulation of steroid metabolic process biological regulation lipid biosynthetic process primary metabolic process regulation of primary metabolic process organic cyclic compound metabolic process organic substance metabolic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process metabolic process regulation of lipid biosynthetic process steroid biosynthetic process regulation of metabolic process lipid metabolic process developmental process multicellular organismal process gonad development reproductive system development cellular developmental process reproductive process sex differentiation animal organ development developmental process involved in reproduction male gonad development male sex differentiation multicellular organism development development of primary male sexual characteristics development of primary sexual characteristics cell differentiation anatomical structure development reproductive structure development cellular process Leydig cell differentiation system development sex determination male sex determination negative regulation of cell population proliferation cell population proliferation regulation of cellular process regulation of smooth muscle cell proliferation negative regulation of biological process smooth muscle cell proliferation negative regulation of smooth muscle cell proliferation regulation of cell population proliferation negative regulation of cellular process muscle cell proliferation ribonucleoprotein complex biogenesis cellular biosynthetic process RNA metabolic process mRNA processing protein-RNA complex assembly cellular component organization cellular component biogenesis nucleobase-containing compound metabolic process spliceosomal complex assembly protein-RNA complex organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis RNA processing mRNA splice site recognition mRNA 3'-splice site recognition RNA splicing protein-containing complex organization cellular metabolic process gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process RNA splicing, via transesterification reactions mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile macromolecule metabolic process regulation of mRNA splicing, via spliceosome regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of mRNA processing regulation of cellular metabolic process regulation of macromolecule metabolic process regulation of RNA splicing regulation of cellular biosynthetic process regulation of gene expression regulation of macromolecule biosynthetic process regulation of mRNA metabolic process nuclear body organization nucleus organization organelle organization	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular non-membrane-bounded organelle ribosome membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular non-membrane-bounded organelle ribosome non-membrane-bounded organelle protein-containing complex nuclear protein-containing complex spliceosomal complex ribonucleoprotein complex U2AF complex nuclear body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR032570	Splicing factor 1, helix-hairpin domain	Domain
A	IPR004087	K Homology domain	Domain
A	IPR001878	Zinc finger, CCHC-type	Domain
A	IPR036612	K Homology domain, type 1 superfamily	Homologous Superfamily
A	IPR045071	KH domain-containing BBP-like	Family
A	IPR047086	Splicing factor 1, helix-hairpin domain superfamily	Homologous Superfamily
A	IPR004088	K Homology domain, type 1	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q15637	melanoma ovarian cancer Pick disease psoriasis astrocytic tumor breast cancer cutaneous melanoma head and neck cancer malignant ependymoma medulloblastoma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma plasma cell myeloma attention deficit hyperactivity disorder, inattentive type breast carcinoma melanoma ovarian cancer Pick disease psoriasis astrocytic tumor breast cancer cutaneous melanoma head and neck cancer malignant ependymoma medulloblastoma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma plasma cell myeloma attention deficit hyperactivity disorder, inattentive type breast carcinoma glioblastoma interstitial lung disease malignant glioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primitive neuroectodermal tumor atypical teratoid rhabdoid tumor chronic obstructive pulmonary disease gout large cell medulloblastoma malignant mesothelioma non-small cell lung carcinoma

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 R01GM133198.