Annotations: 3J3R

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth 1]	SCOP2B Superfamily	Adapter protein MecA, C-terminal domain-like	8092883	3002637	SCOP2B (2022-06-29)
B [auth 2]	SCOP2B Superfamily	Adapter protein MecA, C-terminal domain-like	8092883	3002637	SCOP2B (2022-06-29)
C [auth 3]	SCOP2B Superfamily	Adapter protein MecA, C-terminal domain-like	8092883	3002637	SCOP2B (2022-06-29)
D [auth 4]	SCOP2B Superfamily	Adapter protein MecA, C-terminal domain-like	8092883	3002637	SCOP2B (2022-06-29)
E [auth 5]	SCOP2B Superfamily	Adapter protein MecA, C-terminal domain-like	8092883	3002637	SCOP2B (2022-06-29)
F [auth 6]	SCOP2B Superfamily	Adapter protein MecA, C-terminal domain-like	8092883	3002637	SCOP2B (2022-06-29)
H [auth B]	SCOP2B Superfamily	Double Clp-N motif	8082865	3001383	SCOP2B (2022-06-29)
G [auth A]	SCOP2B Superfamily	Double Clp-N motif	8082865	3001383	SCOP2B (2022-06-29)
I [auth C]	SCOP2B Superfamily	Double Clp-N motif	8082865	3001383	SCOP2B (2022-06-29)
J [auth D]	SCOP2B Superfamily	Double Clp-N motif	8082865	3001383	SCOP2B (2022-06-29)
K [auth E]	SCOP2B Superfamily	Double Clp-N motif	8082865	3001383	SCOP2B (2022-06-29)
L [auth F]	SCOP2B Superfamily	Double Clp-N motif	8082865	3001383	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)
A [auth 1]	MecA_C	e3j3r11	A: a+b two layers	X: Alpha-beta plaits	H: Adapter protein mecA 2 C-terminal domain (From Topology)	T: Adapter protein mecA 2 C-terminal domain	F: MecA_C	ECOD (1.6)
B [auth 2]	MecA_C	e3j3r21	A: a+b two layers	X: Alpha-beta plaits	H: Adapter protein mecA 2 C-terminal domain (From Topology)	T: Adapter protein mecA 2 C-terminal domain	F: MecA_C	ECOD (1.6)
C [auth 3]	MecA_C	e3j3r31	A: a+b two layers	X: Alpha-beta plaits	H: Adapter protein mecA 2 C-terminal domain (From Topology)	T: Adapter protein mecA 2 C-terminal domain	F: MecA_C	ECOD (1.6)
D [auth 4]	MecA_C	e3j3r41	A: a+b two layers	X: Alpha-beta plaits	H: Adapter protein mecA 2 C-terminal domain (From Topology)	T: Adapter protein mecA 2 C-terminal domain	F: MecA_C	ECOD (1.6)
E [auth 5]	MecA_C	e3j3r51	A: a+b two layers	X: Alpha-beta plaits	H: Adapter protein mecA 2 C-terminal domain (From Topology)	T: Adapter protein mecA 2 C-terminal domain	F: MecA_C	ECOD (1.6)
F [auth 6]	MecA_C	e3j3r61	A: a+b two layers	X: Alpha-beta plaits	H: Adapter protein mecA 2 C-terminal domain (From Topology)	T: Adapter protein mecA 2 C-terminal domain	F: MecA_C	ECOD (1.6)
H [auth B]	Clp_N	e3j3rB1	A: alpha arrays	X: Histone-like	H: Histone-related	T: double Clp-N	F: Clp_N	ECOD (1.6)
H [auth B]	ClpB_D2-small	e3j3rB3	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: ClpB_D2-small	ECOD (1.6)
H [auth B]	chaperone_ClpB	e3j3rB2	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: chaperone_ClpB	ECOD (1.6)
H [auth B]	Sigma54_activat	e3j3rB4	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)
G [auth A]	Clp_N	e3j3rA2	A: alpha arrays	X: Histone-like	H: Histone-related	T: double Clp-N	F: Clp_N	ECOD (1.6)
G [auth A]	ClpB_D2-small	e3j3rA5	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: ClpB_D2-small	ECOD (1.6)
G [auth A]	chaperone_ClpB	e3j3rA1	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: chaperone_ClpB	ECOD (1.6)
G [auth A]	Sigma54_activat	e3j3rA3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)
I [auth C]	Clp_N	e3j3rC1	A: alpha arrays	X: Histone-like	H: Histone-related	T: double Clp-N	F: Clp_N	ECOD (1.6)
I [auth C]	ClpB_D2-small	e3j3rC3	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: ClpB_D2-small	ECOD (1.6)
I [auth C]	chaperone_ClpB	e3j3rC2	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: chaperone_ClpB	ECOD (1.6)
I [auth C]	Sigma54_activat	e3j3rC4	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)
J [auth D]	Clp_N	e3j3rD1	A: alpha arrays	X: Histone-like	H: Histone-related	T: double Clp-N	F: Clp_N	ECOD (1.6)
J [auth D]	ClpB_D2-small	e3j3rD3	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: ClpB_D2-small	ECOD (1.6)
J [auth D]	chaperone_ClpB	e3j3rD2	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: chaperone_ClpB	ECOD (1.6)
J [auth D]	Sigma54_activat	e3j3rD4	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)
K [auth E]	Clp_N	e3j3rE1	A: alpha arrays	X: Histone-like	H: Histone-related	T: double Clp-N	F: Clp_N	ECOD (1.6)
K [auth E]	ClpB_D2-small	e3j3rE3	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: ClpB_D2-small	ECOD (1.6)
K [auth E]	chaperone_ClpB	e3j3rE2	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: chaperone_ClpB	ECOD (1.6)
K [auth E]	Sigma54_activat	e3j3rE4	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)
L [auth F]	Clp_N	e3j3rF1	A: alpha arrays	X: Histone-like	H: Histone-related	T: double Clp-N	F: Clp_N	ECOD (1.6)
L [auth F]	ClpB_D2-small	e3j3rF3	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: ClpB_D2-small	ECOD (1.6)
L [auth F]	chaperone_ClpB	e3j3rF2	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: chaperone_ClpB	ECOD (1.6)
L [auth F]	Sigma54_activat	e3j3rF4	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	PF10431	C-terminal, D2-small domain, of ClpB protein (ClpB_D2-small)	C-terminal, D2-small domain, of ClpB protein	This is the C-terminal domain of ClpB protein, referred to as the D2-small domain, and is a mixed alpha-beta structure. Compared with the D1-small domain (included in AAA, Pfam:PF00004) it lacks the long coiled-coil insertion, and instead of helix C4 ...	This is the C-terminal domain of ClpB protein, referred to as the D2-small domain, and is a mixed alpha-beta structure. Compared with the D1-small domain (included in AAA, Pfam:PF00004) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit and thereby providing enough binding energy to stabilise the functional assembly [1]. The domain is associated with two Clp_N, Pfam:PF02861, at the N-terminus as well as AAA, Pfam:PF00004 and AAA_2, Pfam:PF07724.	Domain
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	PF17871	AAA lid domain (AAA_lid_9)	AAA lid domain	This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.	Domain
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	PF02861	Clp amino terminal domain, pathogenicity island component (Clp_N)	Clp amino terminal domain, pathogenicity island component	-	Family
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	PF00004	ATPase family associated with various cellular activities (AAA) (AAA)	ATPase family associated with various cellular activities (AAA)	AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2].	Domain
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	PF07724	AAA domain (Cdc48 subfamily) (AAA_2)	AAA domain (Cdc48 subfamily)	This Pfam entry includes some of the AAA proteins not detected by the Pfam:PF00004 model.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], F [auth 6]	Adapter protein MecA 1	protein-macromolecule adaptor activity molecular adaptor activity	DNA-mediated transformation cellular response to stimulus horizontal gene transfer response to stimulus establishment of competence for transformation cellular process regulation of biological process regulation of cellular process negative regulation of establishment of competence for transformation negative regulation of response to stimulus biological regulation negative regulation of biological process regulation of response to stimulus regulation of establishment of competence for transformation DNA-mediated transformation cellular response to stimulus horizontal gene transfer response to stimulus establishment of competence for transformation cellular process regulation of biological process regulation of cellular process negative regulation of establishment of competence for transformation negative regulation of response to stimulus biological regulation negative regulation of biological process regulation of response to stimulus regulation of establishment of competence for transformation negative regulation of cellular process sporulation resulting in formation of a cellular spore developmental process anatomical structure morphogenesis anatomical structure formation involved in morphogenesis anatomical structure development sporulation regulation of developmental process negative regulation of sporulation resulting in formation of a cellular spore negative regulation of developmental process negative regulation of sporulation regulation of sporulation resulting in formation of a cellular spore regulation of sporulation	-
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	Negative regulator of genetic competence ClpC/MecB	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 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 pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity	DNA-mediated transformation cellular response to stimulus horizontal gene transfer response to stimulus establishment of competence for transformation cellular process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], F [auth 6]	IPR008681	Negative regulator of genetic competence, MecA	Family
A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], F [auth 6]	IPR038471	MecA, C-terminal domain superfamily	Homologous Superfamily
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR001270	ClpA/B family	Family
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR018368	ClpA/B, conserved site 1	Conserved Site
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR041546	ClpA/ClpB, AAA lid domain	Domain
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR050130	ATP-dependent Clp protease/Chaperone ClpA/ClpB	Family
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR004176	Clp, repeat (R) domain	Domain
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR028299	ClpA/B, conserved site 2	Conserved Site
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR003593	AAA+ ATPase domain	Domain
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR003959	ATPase, AAA-type, core	Domain
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR001943	UVR domain	Domain
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR019489	Clp ATPase, C-terminal	Domain
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR036628	Clp, N-terminal domain superfamily	Homologous Superfamily
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

3J3R

Structural dynamics of the MecA-ClpC complex revealed by cryo-EM

External Resource: Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

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3J3R

Structural dynamics of the MecA-ClpC complex revealed by cryo-EM

External Resource: Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage