1MJ1

FITTING THE TERNARY COMPLEX OF EF-Tu/tRNA/GTP AND RIBOSOMAL PROTEINS INTO A 13 A CRYO-EM MAP OF THE COLI 70S RIBOSOME

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
E [auth A]	d1mj1a_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Ribosome complexes	70S ribosome functional complex	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
F [auth O]	d1mj1o_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Ribosome complexes	70S ribosome functional complex	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
G [auth P]	d1mj1p_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Ribosome complexes	70S ribosome functional complex	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
H [auth L]	d1mj1l_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Ribosome complexes	70S ribosome functional complex	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E [auth A]	SCOP2B Superfamily	Ras-like P-loop GTPases	8056500	3002022	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	EF-Tu post-G domain-like	8056501	3002024	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	EF-Tu post-G domain-like	8056503	3002024	SCOP2B (2022-06-29)
F [auth O]	SCOP2B Superfamily	Nucleic acid-binding proteins	8044021	3000135	SCOP2B (2022-06-29)
G [auth P]	SCOP2B Superfamily	S13-like H2TH domain	8003708	3000053	SCOP2B (2022-06-29)
H [auth L]	SCOP2B Superfamily	Ribosomal protein L11 C-terminal domain	8036651	3001186	SCOP2B (2022-06-29)
H [auth L]	SCOP2B Superfamily	Ribosomal L11/L12e N-terminal domain-like	8035082	3000950	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)
E [auth A]	PF03144	e1mj1A1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF03144	ECOD (1.6)
E [auth A]	PF03143	e1mj1A2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Aminomethyltransferase beta-barrel domain	F: PF03143	ECOD (1.6)
E [auth A]	PF00009	e1mj1A3	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)
F [auth O]	PF00164	e1mj1O1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF00164	ECOD (1.6)
G [auth P]	PF00416	e1mj1P1	A: alpha arrays	X: HhH/H2TH	H: H2TH (From Topology)	T: H2TH	F: PF00416	ECOD (1.6)
H [auth L]	PF00298	e1mj1L1	A: alpha arrays	X: HTH	H: HTH	T: Ribosomal protein L11, C-terminal domain	F: PF00298	ECOD (1.6)
H [auth L]	PF03946	e1mj1L2	A: a+b two layers	X: Ribosomal protein L11/L12e N-terminal domain-like	H: Ribosomal protein L11/L12e N-terminal domain (From Topology)	T: Ribosomal protein L11/L12e N-terminal domain	F: PF03946	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth 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
E [auth A]	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
E [auth A]	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
F [auth O]	PF00164	Ribosomal protein S12/S23 (Ribosom_S12_S23)	Ribosomal protein S12/S23	-	Family
G [auth P]	PF00416	Ribosomal protein S13/S18 (Ribosomal_S13)	Ribosomal protein S13/S18	-	Family
H [auth L]	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
H [auth L]	PF00298	Ribosomal protein L11, RNA binding domain (Ribosomal_L11)	Ribosomal protein L11, RNA binding domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth D], B [auth C]	Phe-tRNA	-	-	-
C [auth Q]	sarcin-ricin loop of 23SrRNA	-	-	-
D [auth R]	helix 69 of 23S rRNA	-	-	-
E [auth A]	Elongation Factor Tu	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 guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate 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 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	-	intracellular anatomical structure cytoplasm cellular anatomical entity
F [auth O]	S12 ribosomal protein	RNA binding binding organic cyclic compound binding tRNA binding nucleic acid binding structural molecule activity structural constituent of ribosome rRNA binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process translation gene expression macromolecule biosynthetic process organic substance metabolic process biosynthetic process organic substance biosynthetic process metabolic process cellular process protein metabolic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process translation gene expression macromolecule biosynthetic process organic substance metabolic process biosynthetic process organic substance biosynthetic process metabolic process cellular process protein metabolic process macromolecule metabolic process	protein-containing complex intracellular anatomical structure small ribosomal subunit cellular anatomical entity ribosomal subunit intracellular organelle organelle ribonucleoprotein complex intracellular non-membrane-bounded organelle ribosome non-membrane-bounded organelle
G [auth P]	S13 ribosomal protein	RNA binding binding organic cyclic compound binding tRNA binding nucleic acid binding structural molecule activity structural constituent of ribosome rRNA binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process translation gene expression macromolecule biosynthetic process organic substance metabolic process biosynthetic process organic substance biosynthetic process metabolic process cellular process protein metabolic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process translation gene expression macromolecule biosynthetic process organic substance metabolic process biosynthetic process organic substance biosynthetic process metabolic process cellular process protein metabolic process macromolecule metabolic process	protein-containing complex ribonucleoprotein complex intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle ribosome cellular anatomical entity non-membrane-bounded organelle
H [auth L]	L11 ribosomal protein	structural molecule activity structural constituent of ribosome RNA binding binding organic cyclic compound binding rRNA binding nucleic acid binding large ribosomal subunit rRNA binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process translation gene expression macromolecule biosynthetic process organic substance metabolic process biosynthetic process organic substance biosynthetic process metabolic process cellular process protein metabolic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process translation gene expression macromolecule biosynthetic process organic substance metabolic process biosynthetic process organic substance biosynthetic process metabolic process cellular process protein metabolic process macromolecule metabolic process	protein-containing complex intracellular anatomical structure cellular anatomical entity intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex intracellular non-membrane-bounded organelle ribosome cytoplasm cytosol large ribosomal subunit protein-containing complex intracellular anatomical structure cellular anatomical entity intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex intracellular non-membrane-bounded organelle ribosome cytoplasm cytosol large ribosomal subunit non-membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth A]	IPR000795	Translational (tr)-type GTP-binding domain	Domain
E [auth A]	IPR033720	Elongation factor Tu, domain 2	Domain
E [auth A]	IPR009001	Translation elongation factor EF1A/initiation factor IF2gamma, C-terminal	Homologous Superfamily
E [auth A]	IPR031157	Tr-type G domain, conserved site	Conserved Site
E [auth A]	IPR004541	Translation elongation factor EFTu/EF1A, bacterial/organelle	Family
E [auth A]	IPR004161	Translation elongation factor EFTu-like, domain 2	Domain
E [auth A]	IPR009000	Translation protein, beta-barrel domain superfamily	Homologous Superfamily
E [auth A]	IPR004160	Translation elongation factor EFTu/EF1A, C-terminal	Domain
E [auth A]	IPR005225	Small GTP-binding protein domain	Domain
E [auth A]	IPR041709	Elongation factor Tu (EF-Tu), GTP-binding domain	Domain
E [auth A]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
F [auth O]	IPR006032	Small ribosomal subunit protein uS12	Family
F [auth O]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
F [auth O]	IPR005679	Ribosomal protein uS12, bacterial-type	Family
G [auth P]	IPR027437	Small ribosomal subunit protein uS13, C-terminal	Homologous Superfamily
G [auth P]	IPR001892	Small ribosomal subunit protein uS13	Family
G [auth P]	IPR018269	Small ribosomal subunit protein uS13, conserved site	Conserved Site
G [auth P]	IPR010979	Small ribosomal subunit protein uS13-like, H2TH	Homologous Superfamily
G [auth P]	IPR019980	Small ribosomal subunit protein uS13, bacterial-type	Family
H [auth L]	IPR020785	Large ribosomal subunit protein uL11, conserved site	Conserved Site
H [auth L]	IPR020783	Large ribosomal subunit protein uL11, C-terminal	Domain
H [auth L]	IPR000911	Ribosomal protein uL11	Family
H [auth L]	IPR036769	Large ribosomal subunit protein uL11, C-terminal domain superfamily	Homologous Superfamily
H [auth L]	IPR006519	Large ribosomal subunit protein uL11, bacterial-type	Family
H [auth L]	IPR020784	Large ribosomal subunit protein uL11, N-terminal	Domain
H [auth L]	IPR036796	Large ribosomal subunit protein uL11, N-terminal domain superfamily	Homologous Superfamily