5U31

Crystal structure of AacC2c1-sgRNA-8mer substrate DNA ternary complex

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF22204	e5u31A4	A: beta barrels	X: OB-fold	H: Small protein B (SmpB) (From Topology)	T: Small protein B (SmpB)	F: PF22204	ECOD (1.6)
A	PF22202	e5u31A1	A: alpha complex topology	X: CRISPR-associated endonuclease first helical domain	H: CRISPR-associated endonuclease C2c1 first helical domain (From Topology)	T: CRISPR-associated endonuclease C2c1 first helical domain	F: PF22202	ECOD (1.6)
A	PF22172	e5u31A2	A: alpha complex topology	X: CRISPR-associated endonuclease C2c1 second helical domain (From Topology)	H: CRISPR-associated endonuclease C2c1 second helical domain (From Topology)	T: CRISPR-associated endonuclease C2c1 second helical domain	F: PF22172	ECOD (1.6)
A	PF22126	e5u31A5	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF22126	ECOD (1.6)
A	PF22077	e5u31A3	A: few secondary structure elements	X: CRISPR-associated endonuclease C2c1 C-terminal domain (From Topology)	H: CRISPR-associated endonuclease C2c1 C-terminal domain (From Topology)	T: CRISPR-associated endonuclease C2c1 C-terminal domain	F: PF22077	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF22126	C2c1 CRISPR-Cas endonuclease, RuvC-like domain (C2c1_RuvC-like)	C2c1 CRISPR-Cas endonuclease, RuvC-like domain	This entry represents the RuvC-like domain of C2c1 CRISPR-Cas endonuclease (also known as Cas12b) [1-4]. C2c1 is a class 2 type V-B effector protein that site-specifically targets and cleaves both strands of target DNA.	Domain
A	PF22202	CRISPR-associated endonuclease C2c1 first helical domain (C2c1_helical_1st)	CRISPR-associated endonuclease C2c1 first helical domain	This domain is found at the N-terminal end of CRISPR-associated endonuclease Cas12b from Alicyclobacillus acidoterrestris and similar sequences from firmicutes. Cas12b, also known as C2c1, is a type V-B CRISPR-Cas system dual-RNA-guided DNA endonucle ...	This domain is found at the N-terminal end of CRISPR-associated endonuclease Cas12b from Alicyclobacillus acidoterrestris and similar sequences from firmicutes. Cas12b, also known as C2c1, is a type V-B CRISPR-Cas system dual-RNA-guided DNA endonuclease that site-specifically targets and cleaves dsDNA. This domain, together with the second helical domain (Pfam:PF22172) forms the alpha-recognition (REC) lobe, which recognises a 20bp guide:target heteroduplex in RNAs [1-3].	Domain
A	PF22077	CRISPR-associated endonuclease C2c1 Nuc-II domain (C2c1_Nuc-II)	CRISPR-associated endonuclease C2c1 Nuc-II domain	C2c1 is a class 2 type V-B effector protein that was shown to be active for target DNA cleavage in vivo and in vitro. In contrast to Cpf1, this enzyme cleavage activity requires both crRNA and tracrRNA. The structure of C2c1 consists of an alpha-heli ...	C2c1 is a class 2 type V-B effector protein that was shown to be active for target DNA cleavage in vivo and in vitro. In contrast to Cpf1, this enzyme cleavage activity requires both crRNA and tracrRNA. The structure of C2c1 consists of an alpha-helical recognition (REC) lobe, including Helical-I and Helical-II, and a NUC lobe, including OBD, RuvC, and two Nuc domains [1-2]. This entry represents the C-terminal second Nuc (Nuc-II) domain. This domain folds into an open five-stranded beta-barrel and an alpha-helix. Nuc-II is essential for cleavage activity.	Domain
A	PF22172	CRISPR-associated endonuclease C2c1 second helical domain (C2c1_helical)	CRISPR-associated endonuclease C2c1 second helical domain	This entry represents the second helical domain (REC2) from CRISPR-associated endonuclease C2c1, also known as Cas12b. C2c1 is a guide RNA-mediated type V-B CRISPR-Cas endonuclease that site-specifically targets and cleaves dsDNA. This domain, togeth ...	This entry represents the second helical domain (REC2) from CRISPR-associated endonuclease C2c1, also known as Cas12b. C2c1 is a guide RNA-mediated type V-B CRISPR-Cas endonuclease that site-specifically targets and cleaves dsDNA. This domain, together with the first helical domain (helical-I or REC1) forms the alpha-recognition (REC) lobe, which recognises a 20bp guide:target heteroduplex in RNAs [1-3].	Domain
A	PF22204	CRISPR-associated endonuclease C2c1, wedge domain, second region (C2c1_WED-II)	CRISPR-associated endonuclease C2c1, wedge domain, second region	This domain is found in CRISPR-associated endonuclease Cas12b from Alicyclobacillus acidoterrestris and similar sequences from firmicutes. Cas12b, also known as C2c1, is a type V-B CRISPR-Cas system dual-RNA-guided DNA endonuclease that site-specific ...	This domain is found in CRISPR-associated endonuclease Cas12b from Alicyclobacillus acidoterrestris and similar sequences from firmicutes. Cas12b, also known as C2c1, is a type V-B CRISPR-Cas system dual-RNA-guided DNA endonuclease that site-specifically targets and cleaves dsDNA. This entry represents the second region of the wedge domain (WED-II). It adopts an oligonucleotide-binding (OB) fold with eight beta-stranded distorted beta-sheets flanked by two alpha-helices and one beta-hairpin [1,2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	CRISPR-associated endonuclease C2c1	DNA binding binding organic cyclic compound binding nucleic acid binding endonuclease activity nuclease activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity RNA binding	biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus defense response to virus defense response to other organism response to stress response to external biotic stimulus response to virus	-
B	sgRNA	-	-	-
C	Target DNA strand	-	-	-
D, E	Non-target DNA strand	-	-	-

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 R01GM133198.