5AKF | pdb_00005akf

THE CRYSTAL STRUCTURE OF I-DMOI Q42AK120M IN COMPLEX WITH ITS TARGET DNA NICKED IN THE CODING STRAND A AND IN THE PRESENCE OF 2MM MN

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
I	SCOP2B Superfamily	Homing endonucleases	8035762	3000266	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Homing endonucleases	8035767	3000266	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Homing endonucleases	8035767	3000266	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Homing endonucleases	8035762	3000266	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Homing endonucleases	8035767	3000266	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Homing endonucleases	8035762	3000266	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
I	FAD_binding_4	e5akfI1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: ARM repeat	T: ARM repeat	F: FAD_binding_4	ECOD (v294.1)
E	FAD_binding_4	e5akfE1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: ARM repeat	T: ARM repeat	F: FAD_binding_4	ECOD (v294.1)
A	FAD_binding_4	e5akfA1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: ARM repeat	T: ARM repeat	F: FAD_binding_4	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
I	3.10.28.10	Alpha Beta	Roll	Endonuclease I-creI	Homing endonucleases	CATH (4.3.0)
E	3.10.28.10	Alpha Beta	Roll	Endonuclease I-creI	Homing endonucleases	CATH (4.3.0)
A	3.10.28.10	Alpha Beta	Roll	Endonuclease I-creI	Homing endonucleases	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, H, L	25MER	-	-	-
C, G, K	5'-D(GPTPTPCPCPGPGPCPGPCP*GP)-3'	-	-	-
B, F, J	5'-D(GPCPCPTPTPGPCPCPGPGPGPTPAPAP)-3'	-	-	-
A, E, I	HOMING ENDONUCLEASE I-DMOI	hydrolase activity catalytic activity endonuclease activity nuclease activity catalytic activity, acting on a nucleic acid	intein-mediated protein splicing primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process proteolysis protein processing metabolic process cellular process protein metabolic process macromolecule metabolic process protein splicing nucleobase-containing compound metabolic process intein-mediated protein splicing primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process proteolysis protein processing metabolic process cellular process protein metabolic process macromolecule metabolic process protein splicing nucleobase-containing compound metabolic process DNA recombination DNA metabolic process nucleic acid metabolic process intron homing	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, E, I	IPR004860	Homing endonuclease, LAGLIDADG domain	Domain
A, E, I	IPR006142	Intein	Domain
A, E, I	IPR004042	Intein DOD homing endonuclease, central region	Domain
A, E, I	IPR027434	Homing endonuclease	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.