1YN9 | pdb_00001yn9

Crystal structure of baculovirus RNA 5'-phosphatase complexed with phosphate

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)
C	SCOP2 Family	Dual specificity phosphatase-like	8065545	4000437	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	(Phosphotyrosine protein) phosphatases II	8065546	3000304	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	(Phosphotyrosine protein) phosphatases II	8065546	3000304	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	(Phosphotyrosine protein) phosphatases II	8065546	3000304	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)
C	Sigma_1_2	e1yn9C1	A: alpha bundles	X: HTH	H: Nudix	T: winged helix domain	F: Sigma_1_2	ECOD (develop294)
B	Sigma_1_2	e1yn9B1	A: alpha bundles	X: HTH	H: Nudix	T: winged helix domain	F: Sigma_1_2	ECOD (develop294)
A	Toxin_cobra-type	e1yn9A1	A: alpha bundles	X: Globin-like	H: Ring-building motif I in type III secretion system	T: Ring-building motif I in type III secretion system	F: Toxin_cobra-type	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.90.190.10	Alpha Beta	Alpha-Beta Complex	Protein-Tyrosine Phosphatase	Chain A	CATH (4.3.0)
B	3.90.190.10	Alpha Beta	Alpha-Beta Complex	Protein-Tyrosine Phosphatase	Chain A	CATH (4.3.0)
A	3.90.190.10	Alpha Beta	Alpha-Beta Complex	Protein-Tyrosine Phosphatase	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF00782	Dual specificity phosphatase, catalytic domain (DSPc)	Dual specificity phosphatase, catalytic domain	Ser/Thr and Tyr protein phosphatases. The enzyme's tertiary fold is highly similar to that of tyrosine-specific phosphatases, except for a "recognition" region [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	polynucleotide 5'-phosphatase	phosphoric ester hydrolase activity hydrolase activity, acting on ester bonds polynucleotide 5'-phosphatase activity phosphatase activity hydrolase activity catalytic activity phosphoprotein phosphatase activity catalytic activity, acting on a protein protein tyrosine phosphatase activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR051029	mRNA_Capping_Enz/RNA_Phosphat	Unknown
A, B, C	IPR029021	Protein-tyrosine phosphatase-like	Homologous Superfamily
A, B, C	IPR000387	Tyrosine-specific protein phosphatases domain	Domain
A, B, C	IPR020422	Dual specificity protein phosphatase domain	Domain
A, B, C	IPR000340	Dual specificity phosphatase, catalytic domain	Domain
A, B, C	IPR016130	Protein-tyrosine phosphatase, active site	Active 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.