2V9K | pdb_00002v9k

Crystal structure of human PUS10, a novel pseudouridine synthase.

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Pus10_N_euk	e2v9kA1	A: a/b three-layered sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Pus10_N_euk	ECOD (v294.1)
A	Docking	e2v9kA2	A: a/b three-layered sandwiches	X: Inserted helical domain in fatty acid synthase subunit beta	H: Class 1 N-terminal docking domain	T: Class 1 N-terminal docking domain	F: Docking	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.10.2050	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
A	3.30.70.2510	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
A	3.30.70.3190	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF21237	Eukaryotic Pus10, N-terminal (Pus10_N_euk)	Eukaryotic Pus10, N-terminal	This is the N-terminal domain of eukaryotic tRNA pseudouridine synthase Pus10 [1]. Pus10 has different functions depending on its subcellular location: involved in miRNA processing in the nucleus and acts as a tRNA pseudouridylate synthase in the cyt ...	This is the N-terminal domain of eukaryotic tRNA pseudouridine synthase Pus10 [1]. Pus10 has different functions depending on its subcellular location: involved in miRNA processing in the nucleus and acts as a tRNA pseudouridylate synthase in the cytoplasm [2,3]. This domain functions as an accessory RNA-binding domain regarding the presence of a THUMP domain, similarly to other pseudouridine synthases (Pfam:PF02926) [1]. This entry does not include archaeal Pus10, the N-terminal domain of eukaryotic Pus10 is much larger than that of archaeal Pus10 [2].	Domain
A	PF21238	Pus10, C-terminal (Pus10_C)	Pus10, C-terminal	This is the C-terminal catalytic domain of tRNA pseudouridine synthase Pus10, conserved in archaea and eukaryotes [1-5]. In archaea it catalyses the formation of the pseudouridine at positions 54 and 55 in tRNA, while human Pus10 has different functi ...	This is the C-terminal catalytic domain of tRNA pseudouridine synthase Pus10, conserved in archaea and eukaryotes [1-5]. In archaea it catalyses the formation of the pseudouridine at positions 54 and 55 in tRNA, while human Pus10 has different functions depending on its subcellular location: it is involved in miRNA processing in the nucleus and acts as a tRNA pseudouridylate synthase in the cytoplasm [6,7].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	UNCHARACTERIZED PROTEIN FLJ32312	isomerase activity pseudouridine synthase activity catalytic activity intramolecular transferase activity RNA binding binding primary miRNA binding nucleic acid binding tRNA pseudouridine synthase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid catalytic activity, acting on a tRNA cation binding ion binding isomerase activity pseudouridine synthase activity catalytic activity intramolecular transferase activity RNA binding binding primary miRNA binding nucleic acid binding tRNA pseudouridine synthase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid catalytic activity, acting on a tRNA cation binding ion binding metal ion binding small molecule binding tRNA pseudouridine(55) synthase activity	regulation of cellular process negative regulation of biological process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process negative regulation of cellular process RNA processing negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of cellular process negative regulation of biological process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process negative regulation of cellular process RNA processing negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process regulatory ncRNA processing regulatory ncRNA-mediated gene silencing primary miRNA processing regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process miRNA processing regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process pseudouridine synthesis tRNA pseudouridine synthesis tRNA modification tRNA metabolic process RNA modification tRNA processing macromolecule modification	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytosol nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR020103	Pseudouridine synthase, catalytic domain superfamily	Homologous Superfamily
A	IPR048741	Pus10-like, C-terminal	Domain
A	IPR048742	Pus10, N-terminal, eukaryotes	Domain
A	IPR039894	tRNA pseudouridine synthase Pus10-like	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q3MIT2	Crohn disease ulcerative colitis allergic rhinitis pancreatic ductal adenocarcinoma rheumatoid arthritis celiac disease inflammatory bowel disease psoriasis systemic lupus erythematosus colorectal cancer ovarian cancer psoriatic arthritis

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.