6RJD | pdb_00006rjd

Cryo-EM structure of St1Cas9-sgRNA-tDNA59-ntPAM complex.

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth C]	Cas9_REC	e6rjdC1	A: alpha complex topology	X: CRISPR-associated endonuclease Cas9 alpha-helical lobe	H: CRISPR-associated endonuclease Cas9 alpha-helical lobe (From Topology)	T: CRISPR-associated endonuclease Cas9 alpha-helical lobe	F: Cas9_REC	ECOD (1.6)
A [auth C]	UNK_F_TYPE	e6rjdC3	A: a+b two layers	X: SSHS domain	H: SSHS domain in CRISPR-associated endonuclease Cas9 (From Topology)	T: SSHS domain in CRISPR-associated endonuclease Cas9	F: UNK_F_TYPE	ECOD (1.6)
A [auth C]	UNK_F_TYPE	e6rjdC4	A: a+b complex topology	X: CRISPR-associated endonuclease Cas9 C-terminal domain (From Topology)	H: CRISPR-associated endonuclease Cas9 C-terminal domain (From Topology)	T: CRISPR-associated endonuclease Cas9 C-terminal domain	F: UNK_F_TYPE	ECOD (1.6)
A [auth C]	EUF08585	e6rjdC2	A: a+b complex topology	X: CRISPR-associated endonuclease Cas9 wedge domain (From Topology)	H: CRISPR-associated endonuclease Cas9 wedge domain (From Topology)	T: CRISPR-associated endonuclease Cas9 wedge domain	F: EUF08585	ECOD (1.6)
A [auth C]	Cas9_1st	e6rjdC5	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: Cas9_1st	ECOD (1.6)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth C]	Streptococcus Thermophilus 1 Cas9	DNA binding binding nucleic acid binding endonuclease activity nuclease activity catalytic activity, acting on a nucleic acid catalytic activity RNA binding cation binding ion binding metal ion binding small molecule binding	maintenance of CRISPR repeat elements chromosome organization primary metabolic process DNA metabolic process maintenance of DNA repeat elements nucleic acid metabolic process cellular component organization nucleobase-containing compound metabolic process organelle organization cellular process metabolic process cellular component organization or biogenesis macromolecule metabolic process biological process involved in interspecies interaction between organisms maintenance of CRISPR repeat elements chromosome organization primary metabolic process DNA metabolic process maintenance of DNA repeat elements nucleic acid metabolic process cellular component organization nucleobase-containing compound metabolic process organelle organization cellular process metabolic process cellular component organization or biogenesis macromolecule metabolic process 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	-
C [auth E]	tDNA59	-	-	-
D [auth G]	ntPAM	-	-	-
B [auth D]	sgRNA (78-MER)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C]	IPR040619	Cas9, alpha-helical lobe domain	Domain
A [auth C]	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A [auth C]	IPR033114	Cas9-type HNH domain	Domain
A [auth C]	IPR040555	Cas9, PI domain	Domain
A [auth C]	IPR041383	RuvC endonuclease subdomain 3	Domain
A [auth C]	IPR028629	CRISPR-associated endonuclease Cas9	Family
A [auth C]	IPR003615	HNH nuclease	Domain
A [auth C]	IPR040656	Cas9, WED 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.