7ZKI

Cryo-EM structure of aIF1A:aIF5B:Met-tRNAiMet complex from a Pyrococcus abyssi 30S initiation complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth 6]	SCOP2B Superfamily	Nucleic acid-binding proteins	8085842	3000135	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 6]	PF01176	e7zki61	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF01176	ECOD (1.6)
C [auth 7]	PF03144	e7zki72	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF03144	ECOD (1.6)
C [auth 7]	PF14578	e7zki74	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF14578	ECOD (1.6)
C [auth 7]	PF00009	e7zki71	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00009	ECOD (1.6)
C [auth 7]	PF11987	e7zki73	A: a/b three-layered sandwiches	X: Initiation factor IF2/eIF5b, domain 3 (From Topology)	H: Initiation factor IF2/eIF5b, domain 3 (From Topology)	T: Initiation factor IF2/eIF5b, domain 3	F: PF11987	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth 6]	PF01176	Translation initiation factor 1A / IF-1 (eIF-1a)	Translation initiation factor 1A / IF-1	This family includes both the eukaryotic translation factor eIF-1A and the bacterial translation initiation factor IF-1.	Domain
C [auth 7]	PF00009	Elongation factor Tu GTP binding domain (GTP_EFTU)	Elongation factor Tu GTP binding domain	This domain contains a P-loop motif, also found in several other families such as Pfam:PF00071, Pfam:PF00025 and Pfam:PF00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains.	Domain
C [auth 7]	PF14890	Intein splicing domain (Intein_splicing)	Intein splicing domain	-	Family
C [auth 7]	PF03144	Elongation factor Tu domain 2 (GTP_EFTU_D2)	Elongation factor Tu domain 2	Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA [1]. This domain is also found in other proteins such as e ...	Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA [1]. This domain is also found in other proteins such as elongation factor G and translation initiation factor IF-2. This domain is structurally related to Pfam:PF03143, and in fact has weak sequence matches to this domain.	Domain
C [auth 7]	PF11987	Translation-initiation factor 2 (IF-2)	Translation-initiation factor 2	IF-2 is a translation initiator in each of the three main phylogenetic domains (Eukaryotes [1], Bacteria [2] and Archaea [3]). IF2 interacts with formylmethionine-tRNA, GTP, IF1, IF3 and both ribosomal subunits [2]. Through these interactions, IF2 pr ...	IF-2 is a translation initiator in each of the three main phylogenetic domains (Eukaryotes [1], Bacteria [2] and Archaea [3]). IF2 interacts with formylmethionine-tRNA, GTP, IF1, IF3 and both ribosomal subunits [2]. Through these interactions, IF2 promotes the binding of the initiator tRNA to the A site in the smaller ribosomal subunit and catalyses the hydrolysis of GTP following initiation-complex formation [2].	Domain
C [auth 7]	PF14578	Elongation factor Tu domain 4 (GTP_EFTU_D4)	Elongation factor Tu domain 4	Elongation factor Tu consists of several structural domains, and this is usually the fourth.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth 4]	Met-tRNAiMet	-	-	-
B [auth 6]	Translation initiation factor 1A	translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation initiation factor activity translation factor activity, RNA binding RNA binding	-	-
C [auth 7]	Translation initiation factor 5B	translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation initiation factor activity translation factor activity, RNA binding endonuclease activity nuclease activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity guanyl nucleotide binding GTP binding translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation initiation factor activity translation factor activity, RNA binding endonuclease activity nuclease activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity 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, acting on acid anhydrides	intein-mediated protein splicing organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process primary metabolic process gene expression macromolecule biosynthetic process protein maturation organic substance metabolic process biosynthetic process proteolysis organic substance biosynthetic process protein processing metabolic process intein-mediated protein splicing organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process primary metabolic process gene expression macromolecule biosynthetic process protein maturation organic substance metabolic process biosynthetic process proteolysis organic substance biosynthetic process protein processing metabolic process cellular process protein metabolic process macromolecule metabolic process protein splicing nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA recombination DNA metabolic process nucleic acid metabolic process intron homing	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth 6]	IPR018104	Translation initiation factor 1A (eIF-1A), conserved site	Conserved Site
B [auth 6]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
B [auth 6]	IPR006196	RNA-binding domain, S1, IF1 type	Domain
B [auth 6]	IPR001253	Translation initiation factor 1A (eIF-1A)	Family
C [auth 7]	IPR036844	Hint domain superfamily	Homologous Superfamily
C [auth 7]	IPR000795	Translational (tr)-type GTP-binding domain	Domain
C [auth 7]	IPR004042	Intein DOD homing endonuclease	Domain
C [auth 7]	IPR027434	Homing endonuclease	Homologous Superfamily
C [auth 7]	IPR004161	Translation elongation factor EFTu-like, domain 2	Domain
C [auth 7]	IPR006141	Intein N-terminal splicing region	PTM
C [auth 7]	IPR029459	Elongation factor Tu-type domain	Domain
C [auth 7]	IPR003587	Hint domain N-terminal	Domain
C [auth 7]	IPR009000	Translation protein, beta-barrel domain superfamily	Homologous Superfamily
C [auth 7]	IPR005225	Small GTP-binding protein domain	Domain
C [auth 7]	IPR015760	Translation initiation factor IF- 2	Family
C [auth 7]	IPR004544	Translation initiation factor aIF-2, archaea	Family
C [auth 7]	IPR036925	Translation initiation factor IF-2, domain 3 superfamily	Homologous Superfamily
C [auth 7]	IPR030934	Intein C-terminal splicing region	Domain
C [auth 7]	IPR023115	Translation initiation factor IF- 2, domain 3	Domain
C [auth 7]	IPR003586	Hint domain C-terminal	Domain
C [auth 7]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily