Annotations: 3EP2

Model of Phe-tRNA(Phe) in the ribosomal pre-accommodated state revealed by cryo-EM

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)
C [auth I]	SCOP2B Superfamily	Ribosomal L11/L12e N-terminal domain-like	8032963	3000950	SCOP2B (2022-06-29)
C [auth I]	SCOP2B Superfamily	Ribosomal protein L11, C-terminal domain	8032961	3001186	SCOP2B (2022-06-29)
B [auth L]	SCOP2B Superfamily	Nucleic acid-binding proteins	8106545	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)
C [auth I]	WW	e3ep2I1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: WW	ECOD (v295.2)
B [auth L]	WW	e3ep2L1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: WW	ECOD (v295.2)
A [auth X]	WW	e3ep2X1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: WW	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth I]	PF03946	Ribosomal protein L11, N-terminal domain (Ribosomal_L11_N)	Ribosomal protein L11, N-terminal domain	The N-terminal domain of Ribosomal protein L11 adopts an alpha/beta fold and is followed by the RNA binding C-terminal domain.	Domain
C [auth I]	PF00298	Ribosomal protein L11, RNA binding domain (Ribosomal_L11)	Ribosomal protein L11, RNA binding domain		Domain
B [auth L]	PF00164	Ribosomal protein S12/S23 (Ribosom_S12_S23)	Ribosomal protein S12/S23	This protein is known as S12 in bacteria and archaea and S23 in eukaryotes.	Domain
A [auth X]	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 [auth X]	PF03143	Elongation factor Tu C-terminal domain (GTP_EFTU_D3)	Elongation factor Tu C-terminal domain	Elongation factor Tu consists of three structural domains, this is the third domain. This domain adopts a beta barrel structure. This the third domain is involved in binding to both charged tRNA [1] and binding to EF-Ts Pfam:PF00889 [2].	Domain
A [auth X]	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I [auth E]	Fragment H69 of the 23S rRNA	-	-	-
H [auth D]	Fragment H95 of the 23S rRNA	-	-	-
G [auth B]	Fragment H43-44 of the 23S rRNA	-	-	-
F [auth C]	Fragment h44 of the 16S rRNA	-	-	-
E [auth A]	Fragment h18 of the 16S rRNA	-	-	-
D [auth Y]	tRNA	-	-	-
C [auth I]	50S ribosomal protein L11	RNA binding binding rRNA binding nucleic acid binding large ribosomal subunit rRNA binding structural molecule activity structural constituent of ribosome	cellular response to stimulus cellular response to nutrient levels response to nutrient levels response to stimulus cellular response to stress response to stress stringent response cellular process response to starvation cellular response to starvation primary metabolic process translation gene expression protein biosynthetic process cellular response to stimulus cellular response to nutrient levels response to nutrient levels response to stimulus cellular response to stress response to stress stringent response cellular process response to starvation cellular response to starvation primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process protein metabolic process macromolecule metabolic process cellular component disassembly protein-containing complex organization protein-containing complex disassembly cellular component organization translational termination cellular component organization or biogenesis ribonucleoprotein complex biogenesis organelle assembly membraneless organelle assembly ribosomal large subunit biogenesis protein-RNA complex assembly cellular component biogenesis ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly ribosomal large subunit assembly protein-containing complex assembly ribosome assembly	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome large ribosomal subunit
B [auth L]	30S ribosomal protein S12	RNA binding binding rRNA binding nucleic acid binding misfolded RNA binding tRNA binding structural molecule activity structural constituent of ribosome	regulation of cellular process positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process RNA processing positive regulation of cellular process regulation of biosynthetic process regulation of cellular process positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process RNA processing positive regulation of cellular process regulation of biosynthetic process RNA splicing regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process regulation of RNA splicing macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process positive regulation of gene expression metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process positive regulation of RNA splicing regulation of metabolic process translation protein biosynthetic process cytoplasmic translation protein metabolic process RNA folding Group I intron splicing RNA splicing, via transesterification reactions with guanosine as nucleophile RNA splicing, via transesterification reactions response to stimulus response to chemical response to antibiotic maintenance of translational fidelity	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome
A [auth X]	Elongation factor Tu	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding guanosine tetraphosphate binding guanyl nucleotide binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding nucleoside phosphate binding purine nucleotide binding anion binding cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding guanosine tetraphosphate binding guanyl nucleotide binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding nucleoside phosphate binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding translation factor activity translation elongation factor activity RNA binding nucleic acid binding GTP binding purine ribonucleoside triphosphate 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	response to stimulus response to chemical response to antibiotic primary metabolic process translation gene expression macromolecule biosynthetic process protein biosynthetic process biosynthetic process translational elongation metabolic process cellular process macromolecule metabolic process protein metabolic process	cell periphery cellular anatomical structure plasma membrane membrane intracellular anatomical structure cytoplasm protein-containing complex guanyl-nucleotide exchange factor complex intracellular protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth I]	IPR020785	Large ribosomal subunit protein uL11, conserved site	Conserved Site
C [auth I]	IPR020783	Large ribosomal subunit protein uL11, C-terminal	Domain
C [auth I]	IPR000911	Ribosomal protein uL11	Family
C [auth I]	IPR020784	Large ribosomal subunit protein uL11, N-terminal	Domain
C [auth I]	IPR036769	Large ribosomal subunit protein uL11, C-terminal domain superfamily	Homologous Superfamily
C [auth I]	IPR036796	Large ribosomal subunit protein uL11, N-terminal domain superfamily	Homologous Superfamily
C [auth I]	IPR006519	Large ribosomal subunit protein uL11, bacteria	Family
B [auth L]	IPR005679	Ribosomal protein uS12, bacteria	Family
B [auth L]	IPR006032	Small ribosomal subunit protein uS12	Family
B [auth L]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
A [auth X]	IPR005225	Small GTP-binding domain	Domain
A [auth X]	IPR000795	Translational (tr)-type GTP-binding domain	Domain
A [auth X]	IPR033720	Elongation factor Tu, domain 2	Domain
A [auth X]	IPR009001	Translation elongation factor EF1A/initiation factor IF2gamma, C-terminal	Homologous Superfamily
A [auth X]	IPR031157	Tr-type G domain, conserved site	Conserved Site
A [auth X]	IPR004541	Translation elongation factor EFTu/EF1A, bacterial/organelle	Family
A [auth X]	IPR004161	Translation elongation factor EFTu-like, domain 2	Domain
A [auth X]	IPR009000	Translation protein, beta-barrel domain superfamily	Homologous Superfamily
A [auth X]	IPR004160	Translation elongation factor EFTu/EF1A, C-terminal	Domain
A [auth X]	IPR050055	Elongation factor Tu GTPase	Family
A [auth X]	IPR041709	Elongation factor Tu (EF-Tu), GTP-binding domain	Domain
A [auth X]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily