6QY3 | pdb_00006qy3

Segment of the Cas1-Cas2-Csn2-DNA filament complex from the Type II-A CRISPR-Cas system

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
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)
ZA [auth z]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
Z	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
YA [auth y]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
Y	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
VA [auth v]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
V	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
UA [auth u]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
U	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
SA [auth s]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
S	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
RA [auth r]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
PA [auth p]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
OA [auth o]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
MA [auth m]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
LA [auth l]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
JA [auth j]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
IA [auth i]	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	CRISPR associated protein Cas1	8093960	3002164	SCOP2B (2022-06-29)
HA [auth h]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
GA [auth g]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
FA [auth f]	SCOP2 Family	Cas_Csn2-like	8095108	4004478	SCOP2 (2022-06-29)
FA [auth f]	SCOP2 Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2 (2022-06-29)
F	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
EA [auth e]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
DA [auth d]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
CA [auth c]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
BA [auth b]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
AA [auth a]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8095109	3002020	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)
ZA [auth z]	Cas_Cas1	e6qy3z1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
Z	Cas_Cas1	e6qy3Z1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
YA [auth y]	Cas_Cas1	e6qy3y1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
Y	Cas_Cas1	e6qy3Y1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
VA [auth v]	Cas_Cas1	e6qy3v1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
V	Cas_Cas1	e6qy3V1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
UA [auth u]	Cas_Cas1	e6qy3u1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
U	Cas_Cas1	e6qy3U1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
SA [auth s]	Cas_Cas1	e6qy3s1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
S	Cas_Cas1	e6qy3S1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
RA [auth r]	Cas_Cas1	e6qy3r1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
R	Cas_Cas1	e6qy3R1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
PA [auth p]	Cas_Cas1	e6qy3p1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
P	Cas_Cas1	e6qy3P1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
OA [auth o]	Cas_Cas1	e6qy3o1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
O	Cas_Cas1	e6qy3O1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
MA [auth m]	Cas_Cas1	e6qy3m1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
M	Cas_Cas1	e6qy3M1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
LA [auth l]	Cas_Cas1	e6qy3l1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
L	Cas_Cas1	e6qy3L1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
JA [auth j]	Cas_Cas1	e6qy3j1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
J	Cas_Cas1	e6qy3J1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
IA [auth i]	Cas_Cas1	e6qy3i1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
I	Cas_Cas1	e6qy3I1	A: alpha complex topology	X: Cas1 (From Topology)	H: Cas1 (From Topology)	T: Cas1	F: Cas_Cas1	ECOD (1.6)
HA [auth h]	Cas_Csn2	e6qy3h1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
H	Cas_Csn2	e6qy3H1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
GA [auth g]	Cas_Csn2	e6qy3g1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
G	Cas_Csn2	e6qy3G1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
FA [auth f]	Cas_Csn2	e6qy3f1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
F	Cas_Csn2	e6qy3F1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
EA [auth e]	Cas_Csn2	e6qy3e1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
E	Cas_Csn2	e6qy3E1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
DA [auth d]	Cas_Csn2	e6qy3d1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
D	Cas_Csn2	e6qy3D1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
CA [auth c]	Cas_Csn2	e6qy3c1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
C	Cas_Csn2	e6qy3C1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
BA [auth b]	Cas_Csn2	e6qy3b1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
B	Cas_Csn2	e6qy3B1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
AA [auth a]	Cas_Csn2	e6qy3a1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)
A	Cas_Csn2	e6qy3A1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cas_Csn2	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
I, IA [auth i], J, JA [auth j], L, I, IA [auth i], J, JA [auth j], L, LA [auth l], M, MA [auth m], O, OA [auth o], P, PA [auth p], R, RA [auth r], S, SA [auth s], U, UA [auth u], V, VA [auth v], Y, YA [auth y], Z, ZA [auth z]	PF01867	CRISPR associated protein Cas1 (Cas_Cas1)	CRISPR associated protein Cas1	-	Family
A, AA [auth a], B, BA [auth b], C, A, AA [auth a], B, BA [auth b], C, CA [auth c], D, DA [auth d], E, EA [auth e], F, FA [auth f], G, GA [auth g], H, HA [auth h]	PF09711	CRISPR-associated protein (Cas_Csn2) (Cas_Csn2)	CRISPR-associated protein (Cas_Csn2)	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I, IA [auth i], J, JA [auth j], L, I, IA [auth i], J, JA [auth j], L, LA [auth l], M, MA [auth m], O, OA [auth o], P, PA [auth p], R, RA [auth r], S, SA [auth s], U, UA [auth u], V, VA [auth v], Y, YA [auth y], Z, ZA [auth z]	CRISPR-associated endonuclease Cas1	DNA endonuclease activity endonuclease activity catalytic activity, acting on DNA nuclease activity catalytic activity, acting on a nucleic acid catalytic activity DNA nuclease activity DNA binding binding nucleic acid binding cation binding ion binding metal ion binding small molecule 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 maintenance of CRISPR repeat elements chromosome organization primary metabolic process DNA 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 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	-
K, KA [auth k], N, NA [auth n], Q, K, KA [auth k], N, NA [auth n], Q, QA [auth q], T, TA [auth t], W, WA [auth w], X, XA [auth x]	CRISPR-associated endoribonuclease Cas2	endonuclease activity nuclease activity catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity catalytic activity cation binding ion binding binding metal ion binding small molecule 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 maintenance of CRISPR repeat elements chromosome organization primary metabolic process DNA 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 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	-
BB [auth 2]	DNA (66-MER)	-	-	-
AB [auth 1]	DNA (66-MER)	-	-	-
A, AA [auth a], B, BA [auth b], C, A, AA [auth a], B, BA [auth b], C, CA [auth c], D, DA [auth d], E, EA [auth e], F, FA [auth f], G, GA [auth g], H, HA [auth h]	CRISPR-associated protein Csn2	DNA binding binding nucleic acid binding cation binding ion binding metal ion binding small molecule 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	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I, IA [auth i], J, JA [auth j], L, I, IA [auth i], J, JA [auth j], L, LA [auth l], M, MA [auth m], O, OA [auth o], P, PA [auth p], R, RA [auth r], S, SA [auth s], U, UA [auth u], V, VA [auth v], Y, YA [auth y], Z, ZA [auth z]	IPR002729	CRISPR-associated protein Cas1	Family
I, IA [auth i], J, JA [auth j], L, I, IA [auth i], J, JA [auth j], L, LA [auth l], M, MA [auth m], O, OA [auth o], P, PA [auth p], R, RA [auth r], S, SA [auth s], U, UA [auth u], V, VA [auth v], Y, YA [auth y], Z, ZA [auth z]	IPR019855	CRISPR-associated protein Cas1, NMENI subtype	Family
I, IA [auth i], J, JA [auth j], L, I, IA [auth i], J, JA [auth j], L, LA [auth l], M, MA [auth m], O, OA [auth o], P, PA [auth p], R, RA [auth r], S, SA [auth s], U, UA [auth u], V, VA [auth v], Y, YA [auth y], Z, ZA [auth z]	IPR042206	CRISPR-associated endonuclease Cas1, C-terminal domain	Homologous Superfamily
I, IA [auth i], J, JA [auth j], L, I, IA [auth i], J, JA [auth j], L, LA [auth l], M, MA [auth m], O, OA [auth o], P, PA [auth p], R, RA [auth r], S, SA [auth s], U, UA [auth u], V, VA [auth v], Y, YA [auth y], Z, ZA [auth z]	IPR050646	CRISPR-associated endonuclease Cas1	Family
K, KA [auth k], N, NA [auth n], Q, K, KA [auth k], N, NA [auth n], Q, QA [auth q], T, TA [auth t], W, WA [auth w], X, XA [auth x]	IPR019199	Virulence-associated protein D / CRISPR associated protein Cas2	Family
K, KA [auth k], N, NA [auth n], Q, K, KA [auth k], N, NA [auth n], Q, QA [auth q], T, TA [auth t], W, WA [auth w], X, XA [auth x]	IPR021127	CRISPR-associated endonuclease Cas2	Family
A, AA [auth a], B, BA [auth b], C, A, AA [auth a], B, BA [auth b], C, CA [auth c], D, DA [auth d], E, EA [auth e], F, FA [auth f], G, GA [auth g], H, HA [auth h]	IPR010146	CRISPR-associated protein, Csn2-type	Family
A, AA [auth a], B, BA [auth b], C, A, AA [auth a], B, BA [auth b], C, CA [auth c], D, DA [auth d], E, EA [auth e], F, FA [auth f], G, GA [auth g], H, HA [auth h]	IPR038600	CRISPR-associated protein Csn2 superfamily	Homologous Superfamily