Annotations: 1QMH

Crystal structure of RNA 3'-terminal phosphate cyclase, an ubiquitous enzyme with unusual topology

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
Structure Motif: Primary M-CSA Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d1qmhb1	Alpha and beta proteins (a/b)	Thioredoxin fold	RNA 3'-terminal phosphate cyclase, RPTC, insert domain	RNA 3'-terminal phosphate cyclase, RPTC, insert domain	RNA 3'-terminal phosphate cyclase, RPTC, insert domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d1qmhb2	Alpha and beta proteins (a+b)	IF3-like	EPT/RTPC-like	RNA 3'-terminal phosphate cyclase, RPTC	RNA 3'-terminal phosphate cyclase, RPTC	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A	d1qmha1	Alpha and beta proteins (a/b)	Thioredoxin fold	RNA 3'-terminal phosphate cyclase, RPTC, insert domain	RNA 3'-terminal phosphate cyclase, RPTC, insert domain	RNA 3'-terminal phosphate cyclase, RPTC, insert domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A	d1qmha2	Alpha and beta proteins (a+b)	IF3-like	EPT/RTPC-like	RNA 3'-terminal phosphate cyclase, RPTC	RNA 3'-terminal phosphate cyclase, RPTC	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	EPT/RTPC-like	8035758	3001530	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	EPT/RTPC-like	8035758	3001530	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RNA 3'-terminal phosphate cyclase, RPTC, insert domain	8044394	3000413	SCOP2B (2022-06-29)
A	SCOP2 Family	RNA 3'-terminal phosphate cyclase, RPTC	8023378	4001419	SCOP2 (2022-06-29)
A	SCOP2 Family	RNA 3'-terminal phosphate cyclase, RPTC, insert domain	8032016	4000489	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	EPT/RTPC-like	8035758	3001530	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	RNA 3'-terminal phosphate cyclase, RPTC, insert domain	8044394	3000413	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)
B	HSP90,HATPase_c_3	e1qmhB1	A: alpha arrays	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: HSP90,HATPase_c_3	ECOD (v295.2)
B	Cpn60_TCP1	e1qmhB2	A: alpha arrays	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: C-terminal subdomain in Lon-related proteases catalytic domains	F: Cpn60_TCP1	ECOD (v295.2)
A	RTC	e1qmhA1	A: a+b two layers	X: IF3-like	H: EPT/RTPC-like	T: EPT/RTPC-like	F: RTC	ECOD (v295.2)
A	RTC_insert	e1qmhA2	A: alpha arrays	X: Thioredoxin-like	H: RNA 3'-terminal phosphate cyclase, RPTC, insert domain	T: RNA 3'-terminal phosphate cyclase, RPTC, insert domain	F: RTC_insert	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.65.10.20	Alpha Beta	Alpha-beta prism	UDP-n-acetylglucosamine1-carboxyvinyl-transferase	Chain	CATH (4.3.0)
B	3.30.360.20	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
A	3.65.10.20	Alpha Beta	Alpha-beta prism	UDP-n-acetylglucosamine1-carboxyvinyl-transferase	Chain	CATH (4.3.0)
A	3.30.360.20	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF05189	RNA 3'-terminal phosphate cyclase (RTC), insert domain (RTC_insert)	RNA 3'-terminal phosphate cyclase (RTC), insert domain	RNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organisms. They catalyse the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation o ...	RNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organisms. They catalyse the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation of the covalent AMP-cyclase intermediate [1]. The structure of RTC demonstrates that RTCs are comprised two domain. The larger domain contains an insert domain of approximately 100 amino acids [1].	Domain
A, B	PF01137	RNA 3'-terminal phosphate cyclase (RTC)	RNA 3'-terminal phosphate cyclase	RNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organisms. They catalyse the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation o ...	RNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organisms. They catalyse the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation of the covalent AMP-cyclase intermediate [1]. The structure of RTC demonstrates that RTCs are comprised two domain. The larger domain contains an insert domain of approximately 100 amino acids [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	RNA 3'-TERMINAL PHOSPHATE CYCLASE	ligase activity, forming phosphoric ester bonds catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid cyclase activity catalytic activity RNA-3'-phosphate cyclase activity ligase activity	RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process metabolic process cellular process RNA processing macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR013792	RNA 3'-terminal phosphate cyclase/enolpyruvate transferase, alpha/beta	Homologous Superfamily
A, B	IPR023797	RNA 3'-terminal phosphate cyclase domain	Domain
A, B	IPR000228	RNA 3'-terminal phosphate cyclase	Family
A, B	IPR020719	RNA 3'-terminal phosphate cyclase-like, conserved site	Conserved Site
A, B	IPR017770	RNA 3'-terminal phosphate cyclase type 1	Family
A, B	IPR037136	RNA 3'-terminal phosphate cyclase domain superfamily	Homologous Superfamily
A, B	IPR013791	RNA 3'-terminal phosphate cyclase, insert domain	Domain
A, B	IPR036553	RNA 3'-terminal phosphate cyclase, insert domain superfamily	Homologous Superfamily

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A	RNA-3'-phosphate cyclase M-CSA #882	The enzyme converts the 3'-terminal phosphate of various RNA substrates into the 2',3'-cyclic phosphodiester in an ATP-dependent reaction. The enzyme also has a polynucleotide 5' adenylylation activity [PMID:21098490 ]. The biological role of this enzyme is unknown but it is likely to function in some aspects of cellular RNA processing.	Defined by 2 residues: GLU:A-14HIS:A-309 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 6.5.1.4 (PDB Primary Data) Search M-CSA Motif + EC 6.5.1.4