1Y88 | pdb_00001y88

Crystal Structure of Protein of Unknown Function AF1548

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)
A	d1y88a1	All alpha proteins	SAM domain-like	Rad51 N-terminal domain-like	Hypothetical protein AF1548, C-terminal domain	Hypothetical protein AF1548, C-terminal domain	(Archaeoglobus fulgidus ) [TaxId: 2234 ],	SCOPe (2.08)
A	d1y88a2	Alpha and beta proteins (a/b)	Restriction endonuclease-like	Restriction endonuclease-like	MRR-like	Hypothetical protein AF1548, N-terminal domain	(Archaeoglobus fulgidus ) [TaxId: 2234 ],	SCOPe (2.08)
A	d1y88a4	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Archaeoglobus fulgidus ) [TaxId: 2234 ],	SCOPe (2.08)
A	d1y88a3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Archaeoglobus fulgidus ) [TaxId: 2234 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Hypothetical protein AF1548, C-terminal domain	8031910	4003010	SCOP2 (2022-06-29)
A	SCOP2 Family	MRR-like	8031911	4003505	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Rad51 N-terminal domain-like	8044288	3000529	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Restriction endonuclease-like	8044289	3000104	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)
A	HHH_5_like	e1y88A1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: HHH_5_like	ECOD (1.6)
A	Mrr_cat	e1y88A2	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: Restriction endonuclease-like (From Topology)	T: Restriction endonuclease-like	F: Mrr_cat	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.1350.10	Alpha Beta	3-Layer(aba) Sandwich	Trna Endonuclease	Chain: A, domain 1	CATH (4.3.0)
A	1.10.150.20	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF22357	AF1548-like, C-terminal (AF1548-like_C)	AF1548-like, C-terminal	This domain is found at the C-terminal end of the uncharacterised protein AF_1548 from Archaeoglobus fulgidus and similar prokaryotic proteins. This domain is often found associated with Pfam:PF04471.	Domain
A	PF04471	Restriction endonuclease (Mrr_cat)	Restriction endonuclease	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Hypothetical protein AF1548	DNA binding binding nucleic acid binding endonuclease activity nuclease activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding	biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response DNA restriction-modification system defense response to symbiont response to external stimulus primary metabolic process clearance of foreign intracellular DNA clearance of foreign intracellular nucleic acids DNA metabolic process response to biotic stimulus nucleic acid metabolic process nucleobase-containing compound metabolic process DNA modification biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response DNA restriction-modification system defense response to symbiont response to external stimulus primary metabolic process clearance of foreign intracellular DNA clearance of foreign intracellular nucleic acids DNA metabolic process response to biotic stimulus nucleic acid metabolic process nucleobase-containing compound metabolic process DNA modification defense response to other organism response to stress macromolecule modification metabolic process cellular process response to external biotic stimulus macromolecule metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR011335	Restriction endonuclease type II-like	Homologous Superfamily
A	IPR011856	tRNA endonuclease-like domain superfamily	Homologous Superfamily
A	IPR054374	AF1548-like, C-terminal	Domain
A	IPR010995	DNA repair Rad51/transcription factor NusA, alpha-helical	Homologous Superfamily
A	IPR007560	Restriction endonuclease type IV, Mrr	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.