5LDO

Crystal structure of E.coli LigT complexed with 3'-AMP

External Resource: Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d5ldoc_	Alpha and beta proteins (a+b)	LigT-like	LigT-like	automated matches	automated matches	(Escherichia coli BL21(DE3) ) [TaxId: 469008 ],	SCOPe (2.08)
A	d5ldoa_	Alpha and beta proteins (a+b)	LigT-like	LigT-like	automated matches	automated matches	(Escherichia coli BL21(DE3) ) [TaxId: 469008 ],	SCOPe (2.08)
B	d5ldob_	Alpha and beta proteins (a+b)	LigT-like	LigT-like	automated matches	automated matches	(Escherichia coli BL21(DE3) ) [TaxId: 469008 ],	SCOPe (2.08)
D	d5ldod_	Alpha and beta proteins (a+b)	LigT-like	LigT-like	automated matches	automated matches	(Escherichia coli BL21(DE3) ) [TaxId: 469008 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	LigT-like	8086042	3001408	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	LigT-like	8086042	3001408	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	LigT-like	8086042	3001408	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	LigT-like	8086042	3001408	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	2_5_RNA_ligase2_1	e5ldoC1	A: beta barrels	X: LigT-like	H: LigT-related (From Topology)	T: LigT-related	F: 2_5_RNA_ligase2_1	ECOD (1.6)
A	2_5_RNA_ligase2_1	e5ldoA1	A: beta barrels	X: LigT-like	H: LigT-related (From Topology)	T: LigT-related	F: 2_5_RNA_ligase2_1	ECOD (1.6)
B	2_5_RNA_ligase2_1	e5ldoB1	A: beta barrels	X: LigT-like	H: LigT-related (From Topology)	T: LigT-related	F: 2_5_RNA_ligase2_1	ECOD (1.6)
D	2_5_RNA_ligase2_1	e5ldoD1	A: beta barrels	X: LigT-like	H: LigT-related (From Topology)	T: LigT-related	F: 2_5_RNA_ligase2_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.90.1140.10	Alpha Beta	Alpha-Beta Complex	Cyclic Phosphodiesterase	Chain: A,	CATH (4.3.0)
A	3.90.1140.10	Alpha Beta	Alpha-Beta Complex	Cyclic Phosphodiesterase	Chain: A,	CATH (4.3.0)
B	3.90.1140.10	Alpha Beta	Alpha-Beta Complex	Cyclic Phosphodiesterase	Chain: A,	CATH (4.3.0)
D	3.90.1140.10	Alpha Beta	Alpha-Beta Complex	Cyclic Phosphodiesterase	Chain: A,	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF13563	2'-5' RNA ligase superfamily (2_5_RNA_ligase2)	2'-5' RNA ligase superfamily	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	RNA 2',3'-cyclic phosphodiesterase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding phosphoric ester hydrolase activity hydrolase activity, acting on ester bonds phosphoric diester hydrolase activity RNA 2',3'-cyclic 3'-phosphodiesterase activity hydrolase activity catalytic activity 2',3'-cyclic-nucleotide 3'-phosphodiesterase activity cyclic-nucleotide phosphodiesterase activity ligase activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR009097	Cyclic phosphodiesterase	Homologous Superfamily
A, B, C, D	IPR004175	RNA 2',3'-cyclic phosphodiesterase	Family

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.