6XN3 | pdb_00006xn3

Structure of the Lactococcus lactis Csm CTR_4:3 CRISPR-Cas Complex

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)
F [auth I]	SCOP2B Superfamily	CRISPR-associated proteins	8106216	3001554	SCOP2B (2022-06-29)
E [auth G]	SCOP2B Superfamily	CRISPR-associated proteins	8106216	3001554	SCOP2B (2022-06-29)
D [auth H]	SCOP2B Superfamily	CRISPR-associated proteins	8106216	3001554	SCOP2B (2022-06-29)
C [auth F]	SCOP2B Superfamily	CRISPR-associated proteins	8106216	3001554	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)
K [auth E]	F_UNCLASSIFIED	e6xn3E1	A: alpha duplicates or obligate multimers	X: Crispr-associated protein Csm2 (From Topology)	H: Crispr-associated protein Csm2 (From Topology)	T: Crispr-associated protein Csm2	F: F_UNCLASSIFIED	ECOD (1.6)
J [auth D]	F_UNCLASSIFIED	e6xn3D1	A: alpha duplicates or obligate multimers	X: Crispr-associated protein Csm2 (From Topology)	H: Crispr-associated protein Csm2 (From Topology)	T: Crispr-associated protein Csm2	F: F_UNCLASSIFIED	ECOD (1.6)
I [auth C]	F_UNCLASSIFIED	e6xn3C1	A: alpha duplicates or obligate multimers	X: Crispr-associated protein Csm2 (From Topology)	H: Crispr-associated protein Csm2 (From Topology)	T: Crispr-associated protein Csm2	F: F_UNCLASSIFIED	ECOD (1.6)
G [auth J]	RAMPs	e6xn3J1	A: a+b two layers	X: Alpha-beta plaits	H: CRISPR transcript (pre-crRNA) processing endoribonuclease-related (From Topology)	T: CRISPR transcript (pre-crRNA) processing endoribonuclease-related	F: RAMPs	ECOD (1.6)
F [auth I]	RAMPs	e6xn3I1	A: a+b two layers	X: Alpha-beta plaits	H: Cas7-related	T: CRISPR-associated protein Cas7/Csa2-related	F: RAMPs	ECOD (1.6)
E [auth G]	RAMPs	e6xn3G1	A: a+b two layers	X: Alpha-beta plaits	H: Cas7-related	T: CRISPR-associated protein Cas7/Csa2-related	F: RAMPs	ECOD (1.6)
D [auth H]	RAMPs	e6xn3H1	A: a+b two layers	X: Alpha-beta plaits	H: Cas7-related	T: CRISPR-associated protein Cas7/Csa2-related	F: RAMPs	ECOD (1.6)
C [auth F]	RAMPs	e6xn3F1	A: a+b two layers	X: Alpha-beta plaits	H: Cas7-related	T: CRISPR-associated protein Cas7/Csa2-related	F: RAMPs	ECOD (1.6)
B	RAMPs_1	e6xn3B1	A: a+b two layers	X: Alpha-beta plaits	H: CRISPR transcript (pre-crRNA) processing endoribonuclease-related (From Topology)	T: CRISPR transcript (pre-crRNA) processing endoribonuclease-related	F: RAMPs_1	ECOD (1.6)
B	Csm4	e6xn3B2	A: a+b two layers	X: Alpha-beta plaits	H: CRISPR transcript (pre-crRNA) processing endoribonuclease-related (From Topology)	T: CRISPR transcript (pre-crRNA) processing endoribonuclease-related	F: Csm4	ECOD (1.6)
A	F_UNCLASSIFIED	e6xn3A5	A: alpha bundles	X: CRISPR RNA silencing complex Cmr2 subunit second helical domain (From Topology)	H: CRISPR RNA silencing complex Cmr2 subunit second helical domain (From Topology)	T: CRISPR RNA silencing complex Cmr2 subunit second helical domain	F: F_UNCLASSIFIED	ECOD (1.6)
A	HD	e6xn3A4	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: HD	ECOD (1.6)
A	Cas10_III_2nd	e6xn3A1	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: Cas10_III_2nd	ECOD (1.6)
A	Cas10_III_1st	e6xn3A3	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: Cas10_III_1st	ECOD (1.6)
A	F_UNCLASSIFIED	e6xn3A2	A: a+b two layers	X: Csm1 ferredoxin-like domain (From Topology)	H: Csm1 ferredoxin-like domain (From Topology)	T: Csm1 ferredoxin-like domain	F: F_UNCLASSIFIED	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.70.270	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Reverse transcriptase/Diguanylate cyclase domain	CATH (utative)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
L [auth T]	target RNA	-	-	-
I [auth C], J [auth D], K [auth E]	CRISPR-associated protein Csm2	RNA binding binding nucleic acid binding	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	-
H [auth R]	Crispr RNA	-	-	-
G [auth J]	CRISPR-associated protein Csm5	RNA binding binding nucleic acid binding	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 F], D [auth H], E [auth G], F [auth I]	CRISPR-associated protein Csm3	hydrolase activity catalytic activity endonuclease activity nuclease activity catalytic activity, acting on a nucleic acid RNA binding binding nucleic acid binding	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	-
B	CRISPR-associated protein Csm4	RNA binding binding nucleic acid binding	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	-
A	CRISPR-associated protein Cas10	hydrolase activity, acting on ester bonds nuclease activity catalytic activity, acting on a nucleic acid hydrolase activity exonuclease activity catalytic activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding hydrolase activity, acting on ester bonds nuclease activity catalytic activity, acting on a nucleic acid hydrolase activity exonuclease activity catalytic activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding endonuclease activity transferase activity	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	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I [auth C], J [auth D], K [auth E]	IPR010149	CRISPR-associated protein, Csm2 Type III-A	Family
G [auth J]	IPR005537	CRISPR type III-associated protein	Domain
G [auth J]	IPR010173	CRISPR-associated protein Csm5	Family
C [auth F], D [auth H], E [auth G], F [auth I]	IPR052216	CRISPR-associated Csm3 endoribonuclease	Family
C [auth F], D [auth H], E [auth G], F [auth I]	IPR013412	CRISPR-associated RAMP Csm3	Family
C [auth F], D [auth H], E [auth G], F [auth I]	IPR005537	CRISPR type III-associated protein	Domain
B	IPR005537	CRISPR type III-associated protein	Domain
B	IPR005510	CRISPR type III-associated RAMP protein Csm4	Family
B	IPR040932	Csm4, C-terminal	Domain
A	IPR000160	GGDEF domain	Domain
A	IPR048693	CRISPR RNA silencing complex Cmr2-like, C-terminal domain	Domain
A	IPR041062	Csm1, subunit domain B	Domain
A	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A	IPR013408	CRISPR system single-strand-specific deoxyribonuclease Cas10/Csm1	Family
A	IPR052117	CRISPR-associated Cas10/Csm1 subtype III-A protein	Family
A	IPR054767	Cas10/Cmr2, second palm domain	Domain
A	IPR006674	HD 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.