2I82 | pdb_00002i82

Crystal structure of pseudouridine synthase RluA: indirect sequence readout through protein-induced RNA structure

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)
H [auth D]	SCOP2B Superfamily	Pseudouridine synthase	8075615	3001360	SCOP2B (2022-06-29)
G [auth C]	SCOP2B Superfamily	Pseudouridine synthase	8075615	3001360	SCOP2B (2022-06-29)
F [auth B]	SCOP2B Superfamily	Pseudouridine synthase	8075615	3001360	SCOP2B (2022-06-29)
E [auth A]	SCOP2 Family	Pseudouridine synthase RsuA/RluD	8075614	4002679	SCOP2 (2022-06-29)
E [auth A]	SCOP2 Superfamily	Pseudouridine synthase	8075615	3001360	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H [auth D]	MarR	e2i82D1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: MarR	ECOD (v294.1)
G [auth C]	MarR	e2i82C1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: MarR	ECOD (v294.1)
F [auth B]	MarR	e2i82B1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: MarR	ECOD (v294.1)
E [auth A]	TetR_N	e2i82A1	A: a/b three-layered sandwiches	X: Globin-like	H: Globin-like	T: Globin-like	F: TetR_N	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H [auth D]	3.30.2350.10	Alpha Beta	2-Layer Sandwich	Pseudouridine synthase	Pseudouridine synthase	CATH (4.3.0)
G [auth C]	3.30.2350.10	Alpha Beta	2-Layer Sandwich	Pseudouridine synthase	Pseudouridine synthase	CATH (4.3.0)
F [auth B]	3.30.2350.10	Alpha Beta	2-Layer Sandwich	Pseudouridine synthase	Pseudouridine synthase	CATH (4.3.0)
E [auth A]	3.30.2350.10	Alpha Beta	2-Layer Sandwich	Pseudouridine synthase	Pseudouridine synthase	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth A], F [auth B], G [auth C], H [auth D]	PF00849	RNA pseudouridylate synthase (PseudoU_synth_2)	RNA pseudouridylate synthase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth A], F [auth B], G [auth C], H [auth D]	Ribosomal large subunit 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 tRNA pseudouridine(32) synthase activity catalytic activity intramolecular transferase activity 23S rRNA pseudouridine(746) synthase activity rRNA pseudouridine synthase activity RNA binding binding nucleic acid binding	ribonucleoprotein complex biogenesis RNA metabolic process rRNA processing rRNA modification nucleobase-containing compound metabolic process cellular component biogenesis RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process cellular component organization or biogenesis RNA processing rRNA metabolic process pseudouridine synthesis rRNA pseudouridine synthesis ribonucleoprotein complex biogenesis RNA metabolic process rRNA processing rRNA modification nucleobase-containing compound metabolic process cellular component biogenesis RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process cellular component organization or biogenesis RNA processing rRNA metabolic process pseudouridine synthesis rRNA pseudouridine synthesis primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA modification biosynthetic process macromolecule modification metabolic process cellular process macromolecule metabolic process enzyme-directed rRNA pseudouridine synthesis tRNA metabolic process tRNA processing tRNA pseudouridine synthesis tRNA modification	-
A [auth E], B [auth F], C [auth G], D [auth H]	5'-R(GPAPGPGPGPGPAPUPUPGPAPAPAPAPUPCPCPCPCPUP*C)-3'	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth A], F [auth B], G [auth C], H [auth D]	IPR020103	Pseudouridine synthase, catalytic domain superfamily	Homologous Superfamily
E [auth A], F [auth B], G [auth C], H [auth D]	IPR006225	Pseudouridine synthase, RluC/RluD	Family
E [auth A], F [auth B], G [auth C], H [auth D]	IPR050188	RluA Pseudouridine Synthase	Family
E [auth A], F [auth B], G [auth C], H [auth D]	IPR006145	Pseudouridine synthase, RsuA/RluA-like	Domain
E [auth A], F [auth B], G [auth C], H [auth D]	IPR006224	Pseudouridine synthase, RluA-like, conserved site	Conserved Site

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.