9LP9 | pdb_00009lp9

The cryo-EM structure of retron Eco8 in a standby state

External Resource: Annotation

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

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth A], K [auth F], L [auth J], M [auth N]	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
A [auth B], E, F [auth I], G [auth M]	PF13304	AAA domain, putative AbiEii toxin, Type IV TA system (AAA_21)	AAA domain, putative AbiEii toxin, Type IV TA system	Several members are annotated as being of the abortive phage resistance system, in which case the family would be acting as the toxin for a type IV toxin-antitoxin resistance system.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, H, I [auth L], J [auth P]	DNA (75-MER)	-	-	-
C, N [auth G], O [auth K], P [auth O]	RNA (161-MER)	-	-	-
B [auth A], K [auth F], L [auth J], M [auth N]	Retron Eco8 reverse transcriptase	RNA-directed DNA polymerase activity catalytic activity, acting on DNA DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups RNA binding binding nucleic acid binding cation binding ion binding metal ion binding RNA-directed DNA polymerase activity catalytic activity, acting on DNA DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups RNA binding binding nucleic acid binding cation binding ion binding metal ion binding small molecule binding	biological process involved in interspecies interaction between organisms defense response to virus response to stimulus defense response response to other organism response to stress response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus	-
A [auth B], E, F [auth I], G [auth M]	Retron Eco8 OLD nuclease	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity nuclease activity catalytic activity, acting on a nucleic acid cation binding metal ion binding	biological process involved in interspecies interaction between organisms defense response to virus response to stimulus defense response response to other organism response to stress response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth A], K [auth F], L [auth J], M [auth N]	IPR000477	Reverse transcriptase domain	Domain
B [auth A], K [auth F], L [auth J], M [auth N]	IPR051083	Group II Intron Splicing and Mobility/Defense	Family
B [auth A], K [auth F], L [auth J], M [auth N]	IPR000123	RNA-directed DNA polymerase (reverse transcriptase), msDNA	Family
B [auth A], K [auth F], L [auth J], M [auth N]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A [auth B], E, F [auth I], G [auth M]	IPR003959	ATPase, AAA-type, core	Domain
A [auth B], E, F [auth I], G [auth M]	IPR051396	Bacterial Antiviral Defense Nuclease	Family
A [auth B], E, F [auth I], G [auth M]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

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.