Annotations: 1VIO

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1vioa2	Alpha and beta proteins (a+b)	Alpha-L RNA-binding motif	Alpha-L RNA-binding motif	Pseudouridine synthase RsuA N-terminal domain	Pseudouridine synthase RsuA N-terminal domain	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
A	d1vioa1	Alpha and beta proteins (a+b)	Pseudouridine synthase	Pseudouridine synthase	Pseudouridine synthase RsuA/RluD	Ribosomal small subunit pseudouridine 516 synthase RsuA	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
A	d1vioa3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
B	d1viob2	Alpha and beta proteins (a+b)	Alpha-L RNA-binding motif	Alpha-L RNA-binding motif	Pseudouridine synthase RsuA N-terminal domain	Pseudouridine synthase RsuA N-terminal domain	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
B	d1viob1	Alpha and beta proteins (a+b)	Pseudouridine synthase	Pseudouridine synthase	Pseudouridine synthase RsuA/RluD	Ribosomal small subunit pseudouridine 516 synthase RsuA	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
B	d1viob3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Pseudouridine synthase RsuA/RluD	8023514	4002679	SCOP2 (2022-06-29)
A	SCOP2 Family	Pseudouridine synthase RsuA N-terminal domain	8023515	4002691	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Pseudouridine synthase	8035894	3001360	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Alpha-L RNA-binding motif	8035895	3001473	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Alpha-L RNA-binding motif	8035895	3001473	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Pseudouridine synthase	8035894	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	S4_1	e1vioA2	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Alpha-L RNA-binding motif	F: S4_1	ECOD (1.6)
A	PseudoU_synth_2	e1vioA1	A: a+b two layers	X: Alpha-beta plaits	H: Pseudouridine synthase (From Topology)	T: Pseudouridine synthase	F: PseudoU_synth_2	ECOD (1.6)
B	S4_1	e1vioB2	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Alpha-L RNA-binding motif	F: S4_1	ECOD (1.6)
B	PseudoU_synth_2	e1vioB1	A: a+b two layers	X: Alpha-beta plaits	H: Pseudouridine synthase (From Topology)	T: Pseudouridine synthase	F: PseudoU_synth_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.290.10	Alpha Beta	Roll	Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region	Chain A	CATH (4.3.0)
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	3.30.70.1560	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Alpha-L RNA-binding motif	CATH (4.3.0)
B	3.10.290.10	Alpha Beta	Roll	Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region	Chain A	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	3.30.70.1560	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Alpha-L RNA-binding motif	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00849	RNA pseudouridylate synthase (PseudoU_synth_2)	RNA pseudouridylate synthase	-	Family
A, B	PF01479	S4 domain (S4)	S4 domain	The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...	The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Ribosomal small subunit pseudouridine synthase A	isomerase activity pseudouridine synthase activity catalytic activity intramolecular transferase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid rRNA pseudouridine synthase activity 16S rRNA pseudouridine(516) synthase activity RNA binding binding organic cyclic compound binding nucleic acid binding	ribonucleoprotein complex biogenesis cellular biosynthetic process RNA metabolic process rRNA processing enzyme-directed rRNA pseudouridine synthesis 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 ribonucleoprotein complex biogenesis cellular biosynthetic process RNA metabolic process rRNA processing enzyme-directed rRNA pseudouridine synthesis 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 cellular metabolic process 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	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR020103	Pseudouridine synthase, catalytic domain superfamily	Homologous Superfamily
A, B	IPR002942	RNA-binding S4 domain	Domain
A, B	IPR020094	Pseudouridine synthase TruA/RsuA/RluB/E/F, N-terminal	Homologous Superfamily
A, B	IPR050343	Ribosomal RNA Pseudouridine Synthase RsuA	Family
A, B	IPR000748	Pseudouridine synthase, RsuA/RluB/E/F	Family
A, B	IPR036986	RNA-binding S4 domain superfamily	Homologous Superfamily
A, B	IPR006145	Pseudouridine synthase, RsuA/RluA-like	Domain
A, B	IPR018496	Pseudouridine synthase, RsuA/RluB/E/F, conserved site	Conserved Site
A, B	IPR042092	Pseudouridine synthase, RsuA/RluB/E/F, catalytic domain	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.