5O8W

CRYSTAL STRUCTURE ANALYSIS OF THE YEAST ELONGATION FACTOR COMPLEX EEF1A:EEF1BA

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d5o8wb_	Alpha and beta proteins (a+b)	Ferredoxin-like	eEF-1beta-like	eEF-1beta-like	Guanine nucleotide exchange factor (GEF) domain from elongation factor-1 beta	Baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

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	8056518	3002024	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ras-like P-loop GTPases	8056515	3002022	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	EF-Tu post-G domain-like	8056516	3002024	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	eEF-1beta-like	8035464	3001297	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	PF03144	e5o8wA3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF03144	ECOD (1.6)
A	PF22594	e5o8wA2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Aminomethyltransferase beta-barrel domain	F: PF22594	ECOD (1.6)
A	PF00009	e5o8wA1	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)
B	PF00736	e5o8wB1	A: a+b two layers	X: Alpha-beta plaits	H: eEF-1beta-like (From Topology)	T: eEF-1beta-like	F: PF00736	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)

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	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	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
B	PF00736	EF-1 guanine nucleotide exchange domain (EF1_GNE)	EF-1 guanine nucleotide exchange domain	This family is the guanine nucleotide exchange domain of EF-1 beta and EF-1 delta chains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Elongation factor 1-alpha	cytoskeletal protein binding actin binding protein-containing complex binding protein binding binding actin filament binding translation regulator activity 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 cytoskeletal protein binding actin binding protein-containing complex binding protein binding binding actin filament binding translation regulator activity 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 GDP binding kinase binding enzyme binding protein kinase binding melatonin binding amide binding ribonucleoprotein complex binding ribosome 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 localization RNA transport nitrogen compound transport nucleocytoplasmic transport transport nuclear transport organic substance transport nucleic acid transport intracellular transport tRNA export from nucleus establishment of localization RNA export from nucleus localization tRNA transport establishment of RNA localization cellular localization RNA transport nitrogen compound transport nucleocytoplasmic transport transport nuclear transport organic substance transport nucleic acid transport intracellular transport tRNA export from nucleus establishment of localization RNA export from nucleus localization tRNA transport establishment of RNA localization establishment of localization in cell macromolecule localization cellular process RNA localization nuclear export nucleobase-containing compound transport regulation of cellular process regulation of protein modification process regulation of protein phosphorylation negative regulation of biological process negative regulation of phosphate metabolic process negative regulation of cellular metabolic process regulation of primary metabolic process organic substance metabolic process regulation of phosphate metabolic process phosphate-containing compound metabolic process negative regulation of protein modification process negative regulation of cellular process protein metabolic process protein modification process phosphorus metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biological process organonitrogen compound metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process cellular metabolic process negative regulation of metabolic process biological regulation primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process negative regulation of protein phosphorylation macromolecule modification negative regulation of phosphorus metabolic process metabolic process regulation of phosphorylation regulation of phosphorus metabolic process macromolecule metabolic process negative regulation of phosphorylation regulation of metabolic process cellular biosynthetic process organonitrogen compound biosynthetic process translation gene expression macromolecule biosynthetic process biosynthetic process translational elongation organic substance biosynthetic process regulation of catalytic activity negative regulation of catalytic activity regulation of transferase activity negative regulation of kinase activity negative regulation of transferase activity regulation of molecular function regulation of kinase activity negative regulation of molecular function negative regulation of protein kinase activity regulation of protein kinase activity cellular response to stimulus response to nutrient levels response to stimulus cellular response to amino acid starvation cellular response to starvation cellular response to nutrient levels cellular response to stress response to stress response to amino acid starvation response to starvation actin cytoskeleton organization actin filament organization cellular component biogenesis cellular component organization organelle organization cellular component assembly actin filament bundle organization actin filament bundle assembly actin filament-based process cellular component organization or biogenesis supramolecular fiber organization cytoskeleton organization	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytosol protein-containing complex eukaryotic translation elongation factor 1 complex intracellular non-membrane-bounded organelle ribosome non-membrane-bounded organelle membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytosol protein-containing complex eukaryotic translation elongation factor 1 complex intracellular non-membrane-bounded organelle ribosome non-membrane-bounded organelle vacuolar membrane storage vacuole membrane lytic vacuole vacuole fungal-type vacuole lytic vacuole membrane bounding membrane of organelle organelle membrane fungal-type vacuole membrane cytoskeleton
B	Elongation factor 1-beta	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 GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	regulation of cytoskeleton organization regulation of cellular component organization regulation of cellular process regulation of actin filament-based process negative regulation of biological process regulation of actin filament bundle assembly cellular component organization cellular component biogenesis cellular component assembly actin filament bundle organization negative regulation of cellular process actin filament-based process negative regulation of supramolecular fiber organization cellular component organization or biogenesis regulation of cytoskeleton organization regulation of cellular component organization regulation of cellular process regulation of actin filament-based process negative regulation of biological process regulation of actin filament bundle assembly cellular component organization cellular component biogenesis cellular component assembly actin filament bundle organization negative regulation of cellular process actin filament-based process negative regulation of supramolecular fiber organization cellular component organization or biogenesis regulation of biological process regulation of actin filament organization negative regulation of cellular component organization actin cytoskeleton organization negative regulation of cytoskeleton organization biological regulation actin filament organization negative regulation of actin filament bundle assembly regulation of cellular component biogenesis regulation of organelle organization organelle organization negative regulation of organelle organization actin filament bundle assembly regulation of actin cytoskeleton organization regulation of supramolecular fiber organization cellular process supramolecular fiber organization cytoskeleton organization cellular biosynthetic process organonitrogen compound biosynthetic process protein-containing complex disassembly regulation of protein-containing complex disassembly regulation of primary metabolic process post-transcriptional regulation of gene expression organic substance metabolic process organic substance biosynthetic process protein metabolic process translational termination regulation of biosynthetic process cellular component disassembly organonitrogen compound metabolic process protein-containing complex organization cellular metabolic process regulation of protein metabolic process regulation of translational termination regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process regulation of translation regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process maintenance of translational fidelity translational elongation	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol protein-containing complex eukaryotic translation elongation factor 1 complex intracellular organelle organelle intracellular non-membrane-bounded organelle ribosome non-membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000795	Translational (tr)-type GTP-binding domain	Domain
A	IPR009001	Translation elongation factor EF1A/initiation factor IF2gamma, C-terminal	Homologous Superfamily
A	IPR004539	Translation elongation factor EF1A, eukaryotic/archaeal	Family
A	IPR004161	Translation elongation factor EFTu-like, domain 2	Domain
A	IPR009000	Translation protein, beta-barrel domain superfamily	Homologous Superfamily
A	IPR004160	Translation elongation factor EFTu/EF1A, C-terminal	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR031157	Tr-type G domain, conserved site	Conserved Site
B	IPR036219	Translation elongation factor eEF-1beta-like superfamily	Homologous Superfamily
B	IPR001326	Translation elongation factor EF1B, beta/delta chains, conserved site	Conserved Site
B	IPR049720	Translation elongation factor EF1B, beta/delta subunit	Family
B	IPR014038	Translation elongation factor EF1B, beta/delta subunit, guanine nucleotide exchange domain	Domain
B	IPR018940	Elongation factor 1 beta central acidic region, eukaryote	Domain
B	IPR036282	Glutathione S-transferase, C-terminal domain superfamily	Homologous Superfamily
B	IPR014717	Translation elongation factor EF1B/small ribosomal subunit protein bS6	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A	M3L	Parent Component: LYS RESID: AA0074 PSI-MOD : N6,N6,N6-trimethyl-L-lysine MOD:00083
A	MLZ	Parent Component: LYS RESID: AA0074 , AA0076 PSI-MOD : N6,N6,N6-trimethyl-L-lysine MOD:00083 , N6-methyl-L-lysine MOD:00085
A	UNK	RESID: AA0074 , AA0076
B	MSE	Parent Component: MET RESID: AA0074 , AA0076

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.