1U3E | pdb_00001u3e

DNA binding and cleavage by the HNH homing endonuclease I-HmuI

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
D [auth M]	d1u3em1	Alpha and beta proteins (a+b)	His-Me finger endonucleases	His-Me finger endonucleases	Intron-encoded homing endonucleases	Intron-encoded homing endonuclease I-HmuI	(Okubovirus SPO1 ) [TaxId: 10685 ],	SCOPe (2.08)
D [auth M]	d1u3em2	Alpha and beta proteins (a+b)	DNA-binding domain of intron-encoded endonucleases	DNA-binding domain of intron-encoded endonucleases	DNA-binding domain of intron-encoded endonucleases	Intron-encoded homing endonuclease I-HmuI	(Okubovirus SPO1 ) [TaxId: 10685 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth M]	SCOP2 Family	Intron-encoded homing endonucleases	8028321	4000891	SCOP2 (2022-06-29)
D [auth M]	SCOP2 Family	DNA-binding domain of intron-encoded endonucleases	8028322	4003725	SCOP2 (2022-06-29)
D [auth M]	SCOP2 Superfamily	His-Me finger endonucleases	8040700	3001893	SCOP2 (2022-06-29)
D [auth M]	SCOP2 Superfamily	DNA-binding domain of intron-encoded endonucleases	8040701	3001361	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)
D [auth M]	IENR1	e1u3eM1	A: alpha arrays	X: HTH	H: HTH	T: DNA-binding domain of intron-encoded endonucleases	F: IENR1	ECOD (1.6)
D [auth M]	HNH_3	e1u3eM2	A: few secondary structure elements	X: His-Me finger endonucleases (From Homology)	H: His-Me finger endonucleases	T: His-Me finger endonucleases	F: HNH_3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth M]	3.90.75.20	Alpha Beta	Alpha-Beta Complex	Homing Intron 3 (I-Ppo) Encoded Endonuclease	Chain A	CATH (4.3.0)
D [auth M]	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth M]	HNH homing endonuclease	endonuclease activity nuclease activity catalytic activity, acting on a nucleic acid catalytic activity hydrolase activity, acting on ester bonds hydrolase activity	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	-
C	5'-D(PGPTPTPAPGPGPCPTPCPAPTPTPAPCP*T)-3'	-	-	-
B	5'-D(CPTPTPAPCPGPTPGPGPGPAPAPTPTPGPCPTPGPAPGP*C)-3'	-	-	-
A	36-MER	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D [auth M]	IPR054307	DNA endonuclease I-HmuI-like, NUMOD-like domain	Domain
D [auth M]	IPR003647	Intron encoded nuclease repeat	Repeat
D [auth M]	IPR010902	NUMOD4	Domain
D [auth M]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
D [auth M]	IPR044925	His-Me finger superfamily	Homologous Superfamily
D [auth M]	IPR003615	HNH nuclease	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.