4CXG

Regulation of the mammalian elongation cycle by 40S subunit rolling: a eukaryotic-specific ribosome rearrangement

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth A]	SCOP2B Superfamily	Ras-like P-loop GTPases	8056520	3002022	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	EF-Tu post-G domain-like	8056523	3002024	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	EF-Tu post-G domain-like	8056521	3002024	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 A]	GTP_EFTU_D2_1	e4cxgA3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: GTP_EFTU_D2_1	ECOD (1.6)
C [auth A]	GTP_EFTU_D3_1	e4cxgA2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Aminomethyltransferase beta-barrel domain	F: GTP_EFTU_D3_1	ECOD (1.6)
C [auth A]	MnmE_helical_2nd	e4cxgA1	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)
D [auth X]	Ribosom_S12_S23	e4cxgX1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: Ribosom_S12_S23	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [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
C [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
C [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
D [auth X]	PF00164	Ribosomal protein S12/S23 (Ribosom_S12_S23)	Ribosomal protein S12/S23	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth 1]	18S RRNA - H44	-	-	-
B [auth 2]	28S RRNA - H89	-	-	-
C [auth A]	ELONGATION FACTOR 1A	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
D [auth X]	40S RIBOSOMAL PROTEIN US12	RNA binding binding organic cyclic compound binding nucleic acid binding structural molecule activity structural constituent of ribosome	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 cytoplasmic translation nitrogen compound metabolic process 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 cytoplasmic translation nitrogen compound metabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular component organization or biogenesis ribosomal small subunit biogenesis cellular component organization organelle organization cellular component assembly stress granule assembly organelle assembly non-membrane-bounded organelle assembly maintenance of translational fidelity	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane cytosolic ribosome ribosome cytoplasm cytosol preribosome protein-containing complex ribonucleoprotein complex small-subunit processome synapse cell junction cytosolic small ribosomal subunit small ribosomal subunit ribosomal subunit nucleoplasm rough endoplasmic reticulum endoplasmic reticulum endomembrane system
E [auth Y]	TRANSFER RNA	-	-	-
F [auth a]	18S RRNA - H5-H14	-	-	-
G [auth b]	18S RRNA - H8	-	-	-
H [auth c]	28S RRNA - H95	-	-	-
I [auth x]	MESSENGER RNA	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A]	IPR000795	Translational (tr)-type GTP-binding domain	Domain
C [auth A]	IPR009001	Translation elongation factor EF1A/initiation factor IF2gamma, C-terminal	Homologous Superfamily
C [auth A]	IPR031157	Tr-type G domain, conserved site	Conserved Site
C [auth A]	IPR004539	Translation elongation factor EF1A, eukaryotic/archaeal	Family
C [auth A]	IPR004161	Translation elongation factor EFTu-like, domain 2	Domain
C [auth A]	IPR009000	Translation protein, beta-barrel domain superfamily	Homologous Superfamily
C [auth A]	IPR004160	Translation elongation factor EFTu/EF1A, C-terminal	Domain
C [auth A]	IPR005225	Small GTP-binding protein domain	Domain
C [auth A]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
D [auth X]	IPR006032	Small ribosomal subunit protein uS12	Family
D [auth X]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
D [auth X]	IPR005680	Small ribosomal subunit protein uS12, eukaryotic/archaeal	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
D [auth X]	Pharos: P62266	brachycephaly, trichomegaly, and developmental delay intellectual disability osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia breast carcinoma large cell medulloblastoma pancreatic intraductal papillary-mucinous carcinoma polycystic ovary syndrome cystic fibrosis medulloblastoma pancreatic intraductal papillary-mucinous neoplasm

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.