4UW2

Crystal structure of Csm1 in T.onnurineus

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4uw2a4	All alpha proteins	Four-helical up-and-down bundle	Helical bundle domains from Csm1/Cmr1-like	Helical bundle domains from Csm1/Cmr1	CRISPR-Cas type III-A interference complex protein Csm1, Domain D	(Thermococcus onnurineus NA1 ) [TaxId: 523850 ],	SCOPe (2.08)
A	d4uw2a1	All alpha proteins	HD-domain/PDEase-like	HD-domain/PDEase-like	HD domain	CRISPR-Cas type III-A interference complex protein Csm1	(Thermococcus onnurineus NA1 ) [TaxId: 523850 ],	SCOPe (2.08)
A	d4uw2a2	Alpha and beta proteins (a+b)	Ferredoxin-like	Ferredoxin-like domains from CRISPR-associated proteins	Nucleotide cyclase domains from Cmr2-like	CRISPR-Cas type III-A interference complex protein Csm1	(Thermococcus onnurineus NA1 ) [TaxId: 523850 ],	SCOPe (2.08)
A	d4uw2a5	Alpha and beta proteins (a+b)	B domain from Cmr1-like	B domain from Cmr1-like	B domain from Cmr1	CRISPR-Cas type III-A interference complex protein Csm1	(Thermococcus onnurineus NA1 ) [TaxId: 523850 ],	SCOPe (2.08)
A	d4uw2a6	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Thermococcus onnurineus NA1 ) [TaxId: 523850 ],	SCOPe (2.08)
B	d4uw2b5	All alpha proteins	Four-helical up-and-down bundle	Helical bundle domains from Csm1/Cmr1-like	Helical bundle domains from Csm1/Cmr1	CRISPR-Cas type III-A interference complex protein Csm1, Domain D	(Thermococcus onnurineus NA1 ) [TaxId: 523850 ],	SCOPe (2.08)
B	d4uw2b1	All alpha proteins	HD-domain/PDEase-like	HD-domain/PDEase-like	HD domain	CRISPR-Cas type III-A interference complex protein Csm1	(Thermococcus onnurineus NA1 ) [TaxId: 523850 ],	SCOPe (2.08)
B	d4uw2b2	Alpha and beta proteins (a+b)	Ferredoxin-like	Ferredoxin-like domains from CRISPR-associated proteins	Nucleotide cyclase domains from Cmr2-like	CRISPR-Cas type III-A interference complex protein Csm1	(Thermococcus onnurineus NA1 ) [TaxId: 523850 ],	SCOPe (2.08)
B	d4uw2b3	Alpha and beta proteins (a+b)	B domain from Cmr1-like	B domain from Cmr1-like	B domain from Cmr1	CRISPR-Cas type III-A interference complex protein Csm1	(Thermococcus onnurineus NA1 ) [TaxId: 523850 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	F_UNCLASSIFIED	e4uw2A1	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	PF01966	e4uw2A5	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
A	PF18211	e4uw2A2	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: PF18211	ECOD (1.6)
A	PF22335	e4uw2A3	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: PF22335	ECOD (1.6)
A	F_UNCLASSIFIED	e4uw2A4	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)
B	F_UNCLASSIFIED	e4uw2B5	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)
B	PF01966	e4uw2B1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PF01966	ECOD (1.6)
B	PF18211	e4uw2B2	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: PF18211	ECOD (1.6)
B	PF22335	e4uw2B4	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: PF22335	ECOD (1.6)
B	F_UNCLASSIFIED	e4uw2B3	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)
C	F_UNCLASSIFIED	e4uw2C2	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)
C	PF22335	e4uw2C1	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: PF22335	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 (4.3.0)
B	3.30.70.270	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Reverse transcriptase/Diguanylate cyclase domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF01966	HD domain (HD)	HD domain	-	Family
A, B, C, D	PF18211	Csm1 subunit domain B (Csm1_B)	Csm1 subunit domain B	This domain is found in the Csm1 subunit of the Csm complex found in Thermococcus onnurineus. Csm is a type III-A CRISPR-Cas system, which is an RNA-guided immune defense mechanism that detects and destroys foreign DNA or RNA. This domain is known as ...	This domain is found in the Csm1 subunit of the Csm complex found in Thermococcus onnurineus. Csm is a type III-A CRISPR-Cas system, which is an RNA-guided immune defense mechanism that detects and destroys foreign DNA or RNA. This domain is known as domain A and is positioned side by side with domain C. Both domain A and domain C adopt the BABBA topology. Domain A interacts primarily with domain B [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	CSM1	nuclease activity hydrolase activity, acting on ester bonds 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 organic cyclic compound binding nuclease activity hydrolase activity, acting on ester bonds 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 organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding endonuclease activity transferase activity identical protein binding protein 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	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR000160	GGDEF domain	Domain
A, B, C, D	IPR013408	CRISPR system single-strand-specific deoxyribonuclease Cas10/Csm1	Family
A, B, C, D	IPR041062	Csm1, subunit domain B	Domain
A, B, C, D	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A, B, C, D	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 R01GM133198.