3QSY

Recognition of the methionylated initiator tRNA by the translation initiation factor 2 in Archaea

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	EF-Tu post-G domain-like	8056817	3002024	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ras-like P-loop GTPases	8056814	3002022	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	EF-Tu post-G domain-like	8056815	3002024	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	eIF-2-alpha, C-terminal domain	8036122	3001618	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	GTP_EFTU_D2_2	e3qsyA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: GTP_EFTU_D2_2	ECOD (1.6)
A	eIF2_C	e3qsyA2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Aminomethyltransferase beta-barrel domain	F: eIF2_C	ECOD (1.6)
A	MnmE_helical_2nd	e3qsyA4	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: MnmE_helical_2nd	ECOD (1.6)
A	DUF35_N_like	e3qsyA3	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: DUF35_N_like	ECOD (1.6)
B	EIF_2_alpha_C_1	e3qsyB1	A: a+b two layers	X: Alpha-beta plaits	H: eIF-2-alpha, C-terminal domain (From Topology)	T: eIF-2-alpha, C-terminal domain	F: EIF_2_alpha_C_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	2.40.30.10	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
B	3.30.70.1130	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	EIF_2_alpha	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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
A	PF09173	Initiation factor eIF2 gamma, C terminal (eIF2_C)	Initiation factor eIF2 gamma, C terminal	Members of this family, which are found in the initiation factors eIF2 and EF-Tu, adopt a structure consisting of a beta barrel with Greek key topology. They are required for formation of the ternary complex with GTP and initiator tRNA [1].	Domain
B	PF07541	Eukaryotic translation initiation factor 2 alpha subunit (EIF_2_alpha)	Eukaryotic translation initiation factor 2 alpha subunit	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Translation initiation factor 2 subunit gamma	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 translation elongation factor activity RNA binding tRNA binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide 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 translation elongation factor activity RNA binding tRNA 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 cation binding metal ion 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	ribonucleoprotein complex biogenesis cellular biosynthetic process protein-RNA complex assembly cellular component organization cellular component biogenesis protein-RNA complex organization cellular component assembly protein-containing complex assembly translational initiation cellular component organization or biogenesis protein metabolic process formation of translation preinitiation complex protein-containing complex organization cellular metabolic process ribonucleoprotein complex biogenesis cellular biosynthetic process protein-RNA complex assembly cellular component organization cellular component biogenesis protein-RNA complex organization cellular component assembly protein-containing complex assembly translational initiation cellular component organization or biogenesis protein metabolic process formation of translation preinitiation complex protein-containing complex organization cellular metabolic process primary metabolic process translation gene expression macromolecule biosynthetic process biosynthetic process cytoplasmic translation cellular process cytoplasmic translational initiation metabolic process macromolecule metabolic process	-
B	Translation initiation factor 2 subunit alpha	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 ribonucleoprotein complex binding protein-containing complex binding ribosome binding	cellular biosynthetic process cellular metabolic process primary metabolic process translation gene expression macromolecule biosynthetic process biosynthetic process translational initiation metabolic process cellular process protein metabolic process macromolecule metabolic process	-
C [auth D]	tRNA	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR005225	Small GTP-binding domain	Domain
A	IPR022424	Translation initiation factor 2, gamma subunit	Family
A	IPR000795	Translational (tr)-type GTP-binding domain	Domain
A	IPR009001	Translation elongation factor EF1A/initiation factor IF2gamma, C-terminal	Homologous Superfamily
A	IPR050543	Eukaryotic Initiation Factor 2 Gamma Subunit	Family
A	IPR044128	Initiation factor eIF2 gamma, GTP-binding domain	Domain
A	IPR015256	Initiation factor eIF2 gamma, C-terminal	Domain
A	IPR009000	Translation protein, beta-barrel domain superfamily	Homologous Superfamily
A	IPR044127	Initiation factor eIF2 gamma, domain 2	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B	IPR003029	S1 domain	Domain
B	IPR044126	IF2a, S1-like domain	Domain
B	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
B	IPR024055	Translation initiation factor 2, alpha subunit, C-terminal	Homologous Superfamily
B	IPR024054	Translation initiation factor 2, alpha subunit, middle domain superfamily	Homologous Superfamily
B	IPR011488	Translation initiation factor 2, alpha subunit	Family
B	IPR022964	Translation initiation factor 2, alpha subunit, archaeal	Family

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.