Annotations: 6EM8

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Ribosomal_L22	e6em8A1	A: alpha bundles	X: Protein kinase/SAICAR synthase/ATP-grasp	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Undecaprenyl diphosphate synthase	F: Ribosomal_L22	ECOD (develop294)
B	Actin	e6em8B1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (develop294)
C	Actin	e6em8C1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (develop294)
D	Actin	e6em8D1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (develop294)
G	Actin	e6em8G1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (develop294)
H [auth I]	Actin	e6em8I1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (develop294)
J [auth L]	Actin	e6em8L1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (develop294)
I [auth H]	Actin	e6em8H1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (develop294)
F	Actin	e6em8F1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (develop294)
E	Actin	e6em8E1	A: alpha bundles	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E, A, B, C, D, E, F, G, H [auth I], I [auth H], J [auth L]	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
A, B, C, D, E, A, B, C, D, E, F, G, H [auth I], I [auth H], J [auth L]	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
A, B, C, D, E, A, B, C, D, E, F, G, H [auth I], I [auth H], J [auth L]	PF02861	Clp repeat (R) N-terminal domain (Clp_N)	Clp repeat (R) N-terminal domain	-	Family
A, B, C, D, E, A, B, C, D, E, F, G, H [auth I], I [auth H], J [auth L]	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
A, B, C, D, E, A, B, C, D, E, F, G, H [auth I], I [auth H], J [auth L]	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, B, C, D, E, A, B, C, D, E, F, G, H [auth I], I [auth H], J [auth L]	ATP-dependent Clp protease ATP-binding subunit ClpC	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 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 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 protein folding chaperone	response to copper ion response to stimulus response to metal ion response to chemical response to stress stress response to copper ion stress response to metal ion stress response to cadmium ion response to cadmium ion	-

InterPro: Protein Family Classification InterPro Database Homepage

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

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.