5G2X

Structure a of Group II Intron Complexed with its Reverse Transcriptase

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	Intron_maturas2	e5g2xC2	A: alpha bundles	X: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	H: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	T: helical bundle domain in reverse transcriptase-like polymerases	F: Intron_maturas2	ECOD (1.6)
C	RVT_1	e5g2xC1	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: RVT_1	ECOD (1.6)
C	KOG4768	e5g2xC3	A: few secondary structure elements	X: His-Me finger endonucleases (From Homology)	H: His-Me finger endonucleases	T: His-Me finger endonucleases	F: KOG4768	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C	PF01348	Type II intron maturase (Intron_maturas2)	Type II intron maturase	Group II introns use intron-encoded reverse transcriptase, maturase and DNA endonuclease activities for site-specific insertion into DNA [2]. Although this type of intron is self splicing in vitro they require a maturase protein for splicing in vivo ...	Group II introns use intron-encoded reverse transcriptase, maturase and DNA endonuclease activities for site-specific insertion into DNA [2]. Although this type of intron is self splicing in vitro they require a maturase protein for splicing in vivo. It has been shown that a specific region of the aI2 intron is needed for the maturase function [1]. This region was found to be conserved in group II introns and called domain X [3].	Domain
C	PF00078	Reverse transcriptase (RNA-dependent DNA polymerase) (RVT_1)	Reverse transcriptase (RNA-dependent DNA polymerase)	A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs ...	A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses.	Domain
C	PF21368	AI2M/AI1M-like, HNH endonuclease (AI2M-like_HNH)	AI2M/AI1M-like, HNH endonuclease	This is the HNH endonuclease domain found in a set of group II intron proteins, including AIM1/2 from yeast and its orthologue from S. pombe. This domain is also found in related bacterial sequences [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	GROUP II INTRON	-	-	-
B	5'-R(CPAPCPAPUPCPCPAPUPAPAPCP)-3'	-	-	-
C	GROUP II INTRON-ENCODED PROTEIN LTRA	endonuclease activity nuclease activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity telomerase activity RNA-directed DNA polymerase activity catalytic activity, acting on DNA DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups	nucleobase-containing compound metabolic process DNA recombination metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process intron homing RNA metabolic process gene expression nucleobase-containing compound biosynthetic process mRNA processing mRNA metabolic process nucleobase-containing compound metabolic process DNA recombination metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process intron homing RNA metabolic process gene expression nucleobase-containing compound biosynthetic process mRNA processing mRNA metabolic process macromolecule biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process RNA processing	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C	IPR000477	Reverse transcriptase domain	Domain
C	IPR051083	Group II Intron Splicing and Mobility/Defense	Family
C	IPR024937	Domain X	Domain
C	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
C	IPR049030	AI2M/AI1M-like, HNH endonuclease domain	Domain

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.