1VS3 | pdb_00001vs3

Crystal Structure of the tRNA Pseudouridine Synthase TruA From Thermus thermophilus HB8

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Pseudouridine synthase I TruA	8073426	4001351	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Pseudouridine synthase	8073427	3001360	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Pseudouridine synthase	8073427	3001360	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	PseudoU_synth_1	e1vs3A1	A: a+b two layers	X: Alpha-beta plaits	H: Pseudouridine synthase (From Topology)	T: Pseudouridine synthase	F: PseudoU_synth_1	ECOD (1.6)
B	PseudoU_synth_1	e1vs3B1	A: a+b two layers	X: Alpha-beta plaits	H: Pseudouridine synthase (From Topology)	T: Pseudouridine synthase	F: PseudoU_synth_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.70.580	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Pseudouridine synthase I, catalytic domain, N-terminal subdomain	CATH (4.3.0)
A	3.30.70.660	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Pseudouridine synthase I, catalytic domain, C-terminal subdomain	CATH (4.3.0)
B	3.30.70.580	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Pseudouridine synthase I, catalytic domain, N-terminal subdomain	CATH (4.3.0)
B	3.30.70.660	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Pseudouridine synthase I, catalytic domain, C-terminal subdomain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF01416	tRNA pseudouridine synthase (PseudoU_synth_1)	tRNA pseudouridine synthase	Involved in the formation of pseudouridine at the anticodon stem and loop of transfer-RNAs Pseudouridine is an isomer of uridine (5-(beta-D-ribofuranosyl) uracil, and id the most abundant modified nucleoside found in all cellular RNAs. The TruA-like ...	Involved in the formation of pseudouridine at the anticodon stem and loop of transfer-RNAs Pseudouridine is an isomer of uridine (5-(beta-D-ribofuranosyl) uracil, and id the most abundant modified nucleoside found in all cellular RNAs. The TruA-like proteins also exhibit a conserved sequence with a strictly conserved aspartic acid, likely involved in catalysis.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	tRNA pseudouridine synthase A	isomerase activity tRNA pseudouridine synthase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid pseudouridine synthase activity catalytic activity, acting on a tRNA catalytic activity tRNA pseudouridine(38-40) synthase activity intramolecular transferase activity RNA binding binding nucleic acid binding	pseudouridine synthesis tRNA pseudouridine synthesis tRNA modification RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process tRNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process RNA modification biosynthetic process pseudouridine synthesis tRNA pseudouridine synthesis tRNA modification RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process tRNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process RNA modification biosynthetic process tRNA processing macromolecule modification metabolic process cellular process macromolecule metabolic process RNA processing	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001406	Pseudouridine synthase I, TruA	Family
A, B	IPR020103	Pseudouridine synthase, catalytic domain superfamily	Homologous Superfamily
A, B	IPR020094	Pseudouridine synthase TruA/RsuA/RluB/E/F, N-terminal	Homologous Superfamily
A, B	IPR020097	Pseudouridine synthase I, TruA, alpha/beta domain	Domain
A, B	IPR020095	Pseudouridine synthase I, TruA, C-terminal	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.