2PLY

Structure of the mRNA binding fragment of elongation factor SelB in complex with SECIS 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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C [auth A]	d2plya1	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	C-terminal fragment of elongation factor SelB	C-terminal fragment of elongation factor SelB	(Moorella thermoacetica ) [TaxId: 1525 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth A]	SCOP2B Superfamily	Winged helix DNA-binding domain	8003482	3000034	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Winged helix DNA-binding domain	8003480	3000034	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Winged helix DNA-binding domain	8003481	3000034	SCOP2B (2022-06-29)
D [auth B]	SCOP2B Superfamily	Winged helix DNA-binding domain	8003482	3000034	SCOP2B (2022-06-29)
D [auth B]	SCOP2B Superfamily	Winged helix DNA-binding domain	8003480	3000034	SCOP2B (2022-06-29)
D [auth B]	SCOP2B Superfamily	Winged helix DNA-binding domain	8003481	3000034	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)
C [auth A]	F_UNCLASSIFIED	e2plyA1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: F_UNCLASSIFIED	ECOD (1.6)
C [auth A]	PF09106	e2plyA2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF09106	ECOD (1.6)
C [auth A]	PF09107	e2plyA3	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF09107	ECOD (1.6)
D [auth B]	F_UNCLASSIFIED	e2plyB2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: F_UNCLASSIFIED	ECOD (1.6)
D [auth B]	PF09106	e2plyB1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF09106	ECOD (1.6)
D [auth B]	PF09107	e2plyB3	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF09107	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth A]	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)
D [auth B]	1.10.10.2770	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
D [auth B]	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth A], D [auth B]	PF09105	Elongation factor SelB, winged helix (SelB-wing_1)	Elongation factor SelB, winged helix	SelB (Selenocysteine-specific elongation factor) is a transcription factor necessary for the incorporation of selenocysteine into proteins and binds both transfer RNA (tRNA) and mRNA. [1,2,3]. This entry represents a domain that adopts a winged-helix ...	SelB (Selenocysteine-specific elongation factor) is a transcription factor necessary for the incorporation of selenocysteine into proteins and binds both transfer RNA (tRNA) and mRNA. [1,2,3]. This entry represents a domain that adopts a winged-helix fold, with an alpha/beta structure consisting of three alpha-helices and a twisted three-stranded antiparallel beta-sheet, with an alpha-beta-alpha-alpha-beta-beta connectivity. In SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit [1].	Domain
C [auth A], D [auth B]	PF09106	Elongation factor SelB, winged helix (SelB-wing_2)	Elongation factor SelB, winged helix	Members of this family adopt a winged-helix fold, with an alpha/beta structure consisting of three alpha-helices and a twisted three-stranded antiparallel beta-sheet, with an alpha-beta-alpha-alpha-beta-beta connectivity. They are involved in both DN ...	Members of this family adopt a winged-helix fold, with an alpha/beta structure consisting of three alpha-helices and a twisted three-stranded antiparallel beta-sheet, with an alpha-beta-alpha-alpha-beta-beta connectivity. They are involved in both DNA and RNA binding [1].	Domain
C [auth A], D [auth B]	PF09107	Elongation factor SelB, winged helix (SelB-wing_3)	Elongation factor SelB, winged helix	Members of this family adopt a winged-helix fold, with an alpha/beta structure consisting of three alpha-helices and a twisted three-stranded antiparallel beta-sheet, with an alpha-beta-alpha-alpha-beta-beta connectivity. They are involved in both DN ...	Members of this family adopt a winged-helix fold, with an alpha/beta structure consisting of three alpha-helices and a twisted three-stranded antiparallel beta-sheet, with an alpha-beta-alpha-alpha-beta-beta connectivity. They are involved in both DNA and RNA binding [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth A], D [auth B]	Selenocysteine-specific elongation factor	translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding translation elongation factor activity nucleic acid binding translation factor activity, RNA binding RNA binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding translation elongation factor activity nucleic acid binding translation factor activity, RNA binding RNA binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity	selenocysteine incorporation regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression organic substance metabolic process organic substance biosynthetic process protein metabolic process regulation of biosynthetic process regulation of biological process organonitrogen compound metabolic process cellular metabolic process regulation of protein metabolic process selenocysteine incorporation regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression organic substance metabolic process organic substance biosynthetic process protein metabolic process regulation of biosynthetic process regulation of biological process organonitrogen compound metabolic process cellular metabolic process regulation of protein metabolic process biological regulation regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process translational readthrough gene expression translation macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process regulation of translation translational elongation regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity
A [auth C], B [auth E]	RNA (5'-R(GPGPCPGPUPUPGPCPCPGPGPUPCPUPGPGPCPAPAPCPGPCP*C)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A], D [auth B]	IPR015190	Translation elongation factor SelB, winged helix, type 2	Domain
C [auth A], D [auth B]	IPR000795	Translational (tr)-type GTP-binding domain	Domain
C [auth A], D [auth B]	IPR009001	Translation elongation factor EF1A/initiation factor IF2gamma, C-terminal	Homologous Superfamily
C [auth A], D [auth B]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
C [auth A], D [auth B]	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
C [auth A], D [auth B]	IPR004161	Translation elongation factor EFTu-like, domain 2	Domain
C [auth A], D [auth B]	IPR015189	Translation elongation factor SelB, winged helix, type 1	Domain
C [auth A], D [auth B]	IPR009000	Translation protein, beta-barrel domain superfamily	Homologous Superfamily
C [auth A], D [auth B]	IPR015191	Elongation factor SelB, fourth winged-helix domain	Domain
C [auth A], D [auth B]	IPR005225	Small GTP-binding protein domain	Domain
C [auth A], D [auth B]	IPR004535	Translation elongation factor, selenocysteine-specific	Family
C [auth A], D [auth B]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

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.