Annotations: 7XBK

Structure and mechanism of a mitochondrial AAA+ disaggregase CLPB

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
I	AAA_6	e7xbkI1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: AAA_6	ECOD (v295)
H	AAA_6	e7xbkH1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: AAA_6	ECOD (v295)
G	PAS_11	e7xbkG1	A: alpha arrays	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: PAS_11	ECOD (v295)
F	PAS_11	e7xbkF1	A: alpha arrays	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: PAS_11	ECOD (v295)
E	AAA_6	e7xbkE1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: AAA_6	ECOD (v295)
D	AAA_6	e7xbkD1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: AAA_6	ECOD (v295)
C	AAA_6	e7xbkC1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: AAA_6	ECOD (v295)
B	AAA_6	e7xbkB1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: AAA_6	ECOD (v295)
A	AAA_6	e7xbkA1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: AAA_6	ECOD (v295)

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, I	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, I	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
J [auth L]	Unknown peptide	-	-	-
A, B, C, D, E A, B, C, D, E, F, G, H, I	Isoform 2 of Caseinolytic peptidase B protein homolog	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-containing complex destabilizing activity ATP-dependent protein disaggregase activity	biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus defense response to virus immune system process defense response to other organism response to stress innate immune response antiviral innate immune response biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus defense response to virus immune system process defense response to other organism response to stress innate immune response antiviral innate immune response response to external biotic stimulus response to virus cellular response to stimulus cellular response to heat cellular response to stress response to heat response to abiotic stimulus cellular process response to temperature stimulus developmental process myeloid leukocyte differentiation cellular developmental process hemopoiesis cell development granulocyte differentiation myeloid cell differentiation cell differentiation anatomical structure development leukocyte differentiation positive regulation of response to biotic stimulus regulation of cellular process pattern recognition receptor signaling pathway intracellular signal transduction cell communication immune response-activating signaling pathway positive regulation of immune response regulation of immune system process signal transduction positive regulation of immune system process innate immune response-activating signaling pathway regulation of biological process regulation of innate immune response RIG-I signaling pathway regulation of response to stimulus positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response cytoplasmic pattern recognition receptor signaling pathway regulation of defense response regulation of response to biotic stimulus regulation of response to external stimulus intracellular receptor signaling pathway signaling positive regulation of biological process positive regulation of response to stimulus positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of response to stress positive regulation of innate immune response biological regulation	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial intermembrane space membrane-enclosed lumen intracellular organelle lumen organelle envelope lumen organelle envelope organelle lumen membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial intermembrane space membrane-enclosed lumen intracellular organelle lumen organelle envelope lumen organelle envelope organelle lumen mitochondrial envelope

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR001270	ClpA/B family	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR002110	Ankyrin repeat	Repeat
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR036770	Ankyrin repeat-containing domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR050130	ATP-dependent Clp protease/Chaperone ClpA/ClpB	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR003593	AAA+ ATPase domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR003959	ATPase, AAA-type, core	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR019489	Clp ATPase, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F, G, H, I	: Q9H078	3-methylglutaconic aciduria with cataracts, neurologic involvement and neutropenia intellectual disability osteosarcoma cataract lung cancer ovarian cancer epilepsy Mitochondrial Diseases

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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.