8SJD | pdb_00008sjd

Cryo-EM structure of the Hermes transposase bound to two right-ends of its DNA transposon.

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
D [auth A]	SCOP2B Superfamily	Hermes dimerisation domain	8038725	3002013	SCOP2B (2022-06-29)
D [auth A]	SCOP2B Superfamily	Ribonuclease H-like	8038724	3000143	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	Ribonuclease H-like	8038724	3000143	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	Hermes dimerisation domain	8038725	3002013	SCOP2B (2022-06-29)
B [auth D]	SCOP2B Superfamily	Hermes dimerisation domain	8038725	3002013	SCOP2B (2022-06-29)
B [auth D]	SCOP2B Superfamily	Ribonuclease H-like	8038724	3000143	SCOP2B (2022-06-29)
A [auth C]	SCOP2B Superfamily	Hermes dimerisation domain	8038725	3002013	SCOP2B (2022-06-29)
A [auth C]	SCOP2B Superfamily	Ribonuclease H-like	8038724	3000143	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)
D [auth A]	zf-C2H2_16	e8sjdA1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: zf-C2H2_16	ECOD (develop294)
C [auth B]	zf-C2H2_16	e8sjdB1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: zf-C2H2_16	ECOD (develop294)
B [auth D]	zf-C2H2_16	e8sjdD1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: zf-C2H2_16	ECOD (develop294)
A [auth C]	zf-C2H2_16	e8sjdC1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: zf-C2H2_16	ECOD (develop294)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
H, I [auth E]	DNA (8-MER)	-	-	-
F [auth I], J [auth F]	DNA (46-MER)	-	-	-
E [auth J], G	DNA (55-MER)	-	-	-
A [auth C], B [auth D], C [auth B], D [auth A]	Hermes transposase	DNA binding binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding protein binding protein dimerization activity	regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process regulation of biological process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C], B [auth D], C [auth B], D [auth A]	IPR052717	Vacuolar processing and transposase activity regulators	Family
A [auth C], B [auth D], C [auth B], D [auth A]	IPR018473	Hermes trasposase, DNA-binding domain	Domain
A [auth C], B [auth D], C [auth B], D [auth A]	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
A [auth C], B [auth D], C [auth B], D [auth A]	IPR003656	Zinc finger, BED-type	Domain
A [auth C], B [auth D], C [auth B], D [auth A]	IPR008906	HAT, C-terminal dimerisation 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.