1ZN0 | pdb_00001zn0

Coordinates of RRF and EF-G fitted into Cryo-EM map of the 50S subunit bound with both EF-G (GDPNP) and RRF

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)
B [auth A]	d1zn0a1	Alpha and beta proteins (a+b)	RRF/tRNA synthetase additional domain-like	Ribosome recycling factor, RRF	Ribosome recycling factor, RRF	Ribosome recycling factor, RRF	(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)
B [auth A]	SCOP2B Superfamily	Ribosome recycling factor, RRF	8032742	3001524	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 B]	GTP_EFTU_D2	e1zn0B1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: GTP_EFTU_D2	ECOD (1.6)
C [auth B]	EFG_IV	e1zn0B4	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: EFG_IV	ECOD (1.6)
C [auth B]	EFG_C	e1zn0B3	A: a+b two layers	X: Alpha-beta plaits	H: EF-G C-terminal domain-like (From Topology)	T: EF-G C-terminal domain-like	F: EFG_C	ECOD (1.6)
C [auth B]	EFG_II	e1zn0B2	A: a+b two layers	X: Alpha-beta plaits	H: EF-G C-terminal domain-like (From Topology)	T: EF-G C-terminal domain-like	F: EFG_II	ECOD (1.6)
C [auth B]	MnmE_helical_2nd	e1zn0B5	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)
B [auth A]	RRF	e1zn0A1	A: a+b two layers	X: RRF/tRNA synthetase additional domain-like	H: Ribosome recycling factor, RRF (From Topology)	T: Ribosome recycling factor, RRF	F: RRF	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth B]	PF00679	Elongation factor G C-terminus (EFG_C)	Elongation factor G C-terminus	This domain includes the carboxyl terminal regions of Elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopt a ferredoxin-like fold.	Domain
C [auth B]	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 B]	PF14492	Elongation Factor G, domain III (EFG_III)	Elongation Factor G, domain III	This domain is found in Elongation Factor G. It shares a similar structure with domain V (Pfam:PF00679). Structural studies in drosophila indicate this is domain 3 [1].	Domain
C [auth B]	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 B]	PF03764	Elongation factor G, domain IV (EFG_IV)	Elongation factor G, domain IV	This domain is found in elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopts a ribosomal protein S5 domain 2-like fold.	Domain
B [auth A]	PF01765	Ribosome recycling factor (RRF)	Ribosome recycling factor	The ribosome recycling factor (RRF / ribosome release factor) dissociates the ribosome from the mRNA after termination of translation, and is essential bacterial growth [1]. Thus ribosomes are "recycled" and ready for another round of protein synthe ...	The ribosome recycling factor (RRF / ribosome release factor) dissociates the ribosome from the mRNA after termination of translation, and is essential bacterial growth [1]. Thus ribosomes are "recycled" and ready for another round of protein synthesis.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth B]	ELONGATION FACTOR G	translation factor activity translation elongation factor activity 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 translation factor activity translation elongation factor activity 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	cellular component organization cellular component disassembly organelle organization organelle disassembly ribosome disassembly cellular process cellular component organization or biogenesis	cellular anatomical structure intracellular anatomical structure cytoplasm
B [auth A]	Ribosome recycling factor	ribonucleoprotein complex binding protein-containing complex binding binding ribosomal large subunit binding ribosome binding	cellular component disassembly cytoplasmic translational termination protein-containing complex organization protein-containing complex disassembly primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process cellular component organization biosynthetic process cytoplasmic translation cellular process metabolic process cellular component disassembly cytoplasmic translational termination protein-containing complex organization protein-containing complex disassembly primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process cellular component organization biosynthetic process cytoplasmic translation cellular process metabolic process translational termination cellular component organization or biogenesis protein metabolic process macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
A [auth C]	16S RIBOSOMAL RNA	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth B]	IPR005225	Small GTP-binding domain	Domain
C [auth B]	IPR005517	Translation elongation factor EFG/EF2, domain IV	Domain
C [auth B]	IPR004540	Translation elongation factor EFG/EF2	Family
C [auth B]	IPR000795	Translational (tr)-type GTP-binding domain	Domain
C [auth B]	IPR000640	Elongation factor EFG, domain V-like	Domain
C [auth B]	IPR031157	Tr-type G domain, conserved site	Conserved Site
C [auth B]	IPR009022	Elongation factor G, domain III	Domain
C [auth B]	IPR035647	EF-G domain III/V-like	Homologous Superfamily
C [auth B]	IPR041095	Elongation Factor G, domain II	Domain
C [auth B]	IPR004161	Translation elongation factor EFTu-like, domain 2	Domain
C [auth B]	IPR047872	Elongation factor G, domain IV	Domain
C [auth B]	IPR009000	Translation protein, beta-barrel domain superfamily	Homologous Superfamily
C [auth B]	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
C [auth B]	IPR035649	EFG, domain V	Domain
C [auth B]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C [auth B]	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Homologous Superfamily
B [auth A]	IPR023584	Ribosome recycling factor domain	Domain
B [auth A]	IPR036191	RRF superfamily	Homologous Superfamily
B [auth A]	IPR002661	Ribosome recycling factor	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.