5EE3

COMPLEX STRUCTURE OF OSYCHF1 WITH AMP-PNP

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
A	d5ee3a1	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	automated matches	automated matches	Rice (Oryza sativa Japonica Group ) [TaxId: 39947 ],	SCOPe (2.08)
A	d5ee3a2	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	TGS-like	automated matches	automated matches	Rice (Oryza sativa Japonica Group ) [TaxId: 39947 ],	SCOPe (2.08)
B	d5ee3b1	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	automated matches	automated matches	Rice (Oryza sativa Japonica Group ) [TaxId: 39947 ],	SCOPe (2.08)
B	d5ee3b2	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	TGS-like	automated matches	automated matches	Rice (Oryza sativa Japonica Group ) [TaxId: 39947 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	YchF-GTPase_C	e5ee3A2	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: YchF-GTPase_C	ECOD (1.6)
A	MnmE_helical_2nd	e5ee3A1	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	YchF-GTPase_C	e5ee3B2	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: YchF-GTPase_C	ECOD (1.6)
B	MnmE_helical_2nd	e5ee3B1	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)

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	3.10.20.30	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Beta-grasp domain	CATH (4.3.0)
A	1.10.150.300	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	3.10.20.30	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Beta-grasp domain	CATH (4.3.0)
B	1.10.150.300	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF01926	50S ribosome-binding GTPase (MMR_HSR1)	50S ribosome-binding GTPase	-	Family
A, B	PF06071	Protein of unknown function (DUF933) (YchF-GTPase_C)	Protein of unknown function (DUF933)	This domain is found at the C terminus of the YchF GTP-binding protein (Swiss:O13998) and is possibly related to the ubiquitin-like and MoaD/ThiS superfamilies.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Obg-like ATPase 1	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ribonucleoprotein complex binding protein-containing complex binding ribosomal large subunit binding ribosome binding pyrophosphatase activity ATP hydrolysis 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 ATP-dependent activity guanyl nucleotide binding GTP binding guanyl ribonucleotide binding cation binding metal ion binding GTPase activity	response to osmotic stress regulation of biological process response to stimulus negative regulation of response to stimulus negative regulation of response to salt stress biological regulation negative regulation of biological process response to salt stress regulation of response to osmotic stress regulation of response to salt stress regulation of response to stimulus response to stress regulation of response to stress response to abiotic stimulus response to osmotic stress regulation of biological process response to stimulus negative regulation of response to stimulus negative regulation of response to salt stress biological regulation negative regulation of biological process response to salt stress regulation of response to osmotic stress regulation of response to salt stress regulation of response to stimulus response to stress regulation of response to stress response to abiotic stimulus regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms negative regulation of response to biotic stimulus regulation of response to external stimulus response to biotic stimulus defense response to bacterium response to bacterium response to external biotic stimulus regulation of defense response to bacterium defense response response to other organism response to external stimulus negative regulation of defense response to bacterium negative regulation of response to external stimulus defense response to other organism negative regulation of defense response	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol cell periphery plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR031167	OBG-type guanine nucleotide-binding (G) domain	Domain
A, B	IPR012676	TGS-like	Homologous Superfamily
A, B	IPR004095	TGS	Domain
A, B	IPR004396	Ribosome-binding ATPase YchF/Obg-like ATPase 1	Family
A, B	IPR023192	TGS-like domain superfamily	Homologous Superfamily
A, B	IPR013029	YchF, C-terminal domain	Domain
A, B	IPR012675	Beta-grasp domain superfamily	Homologous Superfamily
A, B	IPR006073	GTP binding domain	Domain
A, B	IPR041706	YchF, N-terminal	Domain
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

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.