3RIJ | pdb_00003rij

Epitope backbone grafting by computational design for improved presentation of linear epitopes on scaffold proteins

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3rija_	Alpha and beta proteins (a+b)	YbaK/ProRS associated domain	YbaK/ProRS associated domain	automated matches	automated matches	(Thermus thermophilus HB8 ) [TaxId: 300852 ], (Thermus thermophilus HB8 ) [TaxId: 300852 ],	SCOPe (2.08)
B	d3rijb_	Alpha and beta proteins (a+b)	YbaK/ProRS associated domain	YbaK/ProRS associated domain	automated matches	automated matches	(Thermus thermophilus HB8 ) [TaxId: 300852 ], (Thermus thermophilus HB8 ) [TaxId: 300852 ],	SCOPe (2.08)
D	d3rijd_	Alpha and beta proteins (a+b)	YbaK/ProRS associated domain	YbaK/ProRS associated domain	automated matches	automated matches	(Thermus thermophilus HB8 ) [TaxId: 300852 ], (Thermus thermophilus HB8 ) [TaxId: 300852 ],	SCOPe (2.08)
C	d3rijc_	Alpha and beta proteins (a+b)	YbaK/ProRS associated domain	YbaK/ProRS associated domain	automated matches	automated matches	(Thermus thermophilus HB8 ) [TaxId: 300852 ], (Thermus thermophilus HB8 ) [TaxId: 300852 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	ProX-like	8081270	3000535	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ProX-like	8081270	3000535	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	ProX-like	8081270	3000535	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ProX-like	8081270	3000535	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	tRNA_edit	e3rijA1	A: a+b complex topology	X: YbaK/ProRS associated domain (From Topology)	H: YbaK/ProRS associated domain (From Topology)	T: YbaK/ProRS associated domain	F: tRNA_edit	ECOD (1.6)
B	tRNA_edit	e3rijB1	A: a+b complex topology	X: YbaK/ProRS associated domain (From Topology)	H: YbaK/ProRS associated domain (From Topology)	T: YbaK/ProRS associated domain	F: tRNA_edit	ECOD (1.6)
D	tRNA_edit	e3rijD1	A: a+b complex topology	X: YbaK/ProRS associated domain (From Topology)	H: YbaK/ProRS associated domain (From Topology)	T: YbaK/ProRS associated domain	F: tRNA_edit	ECOD (1.6)
C	tRNA_edit	e3rijC1	A: a+b complex topology	X: YbaK/ProRS associated domain (From Topology)	H: YbaK/ProRS associated domain (From Topology)	T: YbaK/ProRS associated domain	F: tRNA_edit	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.960.10	Alpha Beta	Alpha-Beta Complex	YbaK protein	YbaK/aminoacyl-tRNA synthetase-associated domain	CATH (4.3.0)
B	3.90.960.10	Alpha Beta	Alpha-Beta Complex	YbaK protein	YbaK/aminoacyl-tRNA synthetase-associated domain	CATH (4.3.0)
D	3.90.960.10	Alpha Beta	Alpha-Beta Complex	YbaK protein	YbaK/aminoacyl-tRNA synthetase-associated domain	CATH (4.3.0)
C	3.90.960.10	Alpha Beta	Alpha-Beta Complex	YbaK protein	YbaK/aminoacyl-tRNA synthetase-associated domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF04073	Aminoacyl-tRNA editing domain (tRNA_edit)	Aminoacyl-tRNA editing domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	SC_2cx5	aminoacyl-tRNA deacylase activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid deacylase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity, acting on a tRNA catalytic activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR007214	YbaK/aminoacyl-tRNA synthetase-associated domain	Domain
A, B, C, D	IPR036754	YbaK/aminoacyl-tRNA synthetase-associated domain superfamily	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.