3FMA

Crystal structure of the GYF domain of Smy2 in complex with a proline-rich peptide from BBP/ScSF1

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF02213	e3fmaA1	A: a+b two layers	X: GYF/BRK domain-like	H: GYF domain (From Topology)	T: GYF domain	F: PF02213	ECOD (1.6)
B	PF02213	e3fmaB1	A: a+b two layers	X: GYF/BRK domain-like	H: GYF domain (From Topology)	T: GYF domain	F: PF02213	ECOD (1.6)
C	PF02213	e3fmaC1	A: a+b two layers	X: GYF/BRK domain-like	H: GYF domain (From Topology)	T: GYF domain	F: PF02213	ECOD (1.6)
D	PF02213	e3fmaD1	A: a+b two layers	X: GYF/BRK domain-like	H: GYF domain (From Topology)	T: GYF domain	F: PF02213	ECOD (1.6)
E	PF02213	e3fmaE1	A: a+b two layers	X: GYF/BRK domain-like	H: GYF domain (From Topology)	T: GYF domain	F: PF02213	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.1490.40	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
B	3.30.1490.40	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
C	3.30.1490.40	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
D	3.30.1490.40	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
E	3.30.1490.40	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E	PF02213	GYF domain (GYF)	GYF domain	The GYF domain is named because of the presence of Gly-Tyr-Phe residues. The GYF domain is a proline-binding domain in CD2-binding protein Swiss:O95400.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E	Protein SMY2	-	localization cellular localization transport establishment of localization in cell intracellular transport cellular process endoplasmic reticulum to Golgi vesicle-mediated transport establishment of localization Golgi vesicle transport vesicle-mediated transport	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane
F [auth L], G [auth M], H [auth N], I [auth O], J [auth P]	Branchpoint-bridging protein	RNA binding binding organic cyclic compound binding nucleic acid binding mRNA binding pre-mRNA binding pre-mRNA branch point binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	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 organic substance metabolic process protein-containing complex assembly organic substance biosynthetic process 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 organic substance metabolic process protein-containing complex assembly organic substance biosynthetic process cellular component organization or biogenesis RNA processing RNA splicing protein-containing complex organization cellular metabolic process primary metabolic process gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process RNA splicing, via transesterification reactions mRNA splicing, via spliceosome cellular process metabolic process RNA splicing, via transesterification reactions with bulged adenosine as nucleophile macromolecule metabolic process regulation of cellular process regulation of mRNA splicing, via spliceosome regulation of primary metabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of biosynthetic process regulation of mRNA processing regulation of biological process biological regulation 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 regulation of metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle U2-type spliceosomal complex protein-containing complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle spliceosomal complex organelle ribonucleoprotein complex intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle U2-type spliceosomal complex protein-containing complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle spliceosomal complex organelle ribonucleoprotein complex commitment complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E	IPR003169	GYF domain	Domain
A, B, C, D, E	IPR035445	GYF-like domain superfamily	Homologous Superfamily
F [auth L], G [auth M], H [auth N], I [auth O], J [auth P]	IPR036875	Zinc finger, CCHC-type superfamily	Homologous Superfamily
F [auth L], G [auth M], H [auth N], I [auth O], J [auth P]	IPR032570	Splicing factor 1, helix-hairpin domain	Domain
F [auth L], G [auth M], H [auth N], I [auth O], J [auth P]	IPR013041	Clathrin adaptor, appendage, Ig-like subdomain superfamily	Homologous Superfamily
F [auth L], G [auth M], H [auth N], I [auth O], J [auth P]	IPR004087	K Homology domain	Domain
F [auth L], G [auth M], H [auth N], I [auth O], J [auth P]	IPR047086	Splicing factor 1, helix-hairpin domain superfamily	Homologous Superfamily
F [auth L], G [auth M], H [auth N], I [auth O], J [auth P]	IPR001878	Zinc finger, CCHC-type	Domain
F [auth L], G [auth M], H [auth N], I [auth O], J [auth P]	IPR036612	K Homology domain, type 1 superfamily	Homologous Superfamily
F [auth L], G [auth M], H [auth N], I [auth O], J [auth P]	IPR045071	KH domain-containing BBP-like	Family
F [auth L], G [auth M], H [auth N], I [auth O], J [auth P]	IPR004088	K Homology domain, type 1	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.