1KHY | pdb_00001khy

The Crystal Structure of ClpB N Terminal Domain, Implication to the Peptide Binding Function of ClpB

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 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)
D	d1khyd_	All alpha proteins	Double Clp-N motif	Double Clp-N motif	Double Clp-N motif	N-terminal domain of ClpB (heat shock protein F84.1)	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1khyc_	All alpha proteins	Double Clp-N motif	Double Clp-N motif	Double Clp-N motif	N-terminal domain of ClpB (heat shock protein F84.1)	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1khyb_	All alpha proteins	Double Clp-N motif	Double Clp-N motif	Double Clp-N motif	N-terminal domain of ClpB (heat shock protein F84.1)	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1khya_	All alpha proteins	Double Clp-N motif	Double Clp-N motif	Double Clp-N motif	N-terminal domain of ClpB (heat shock protein F84.1)	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2 Family	Double Clp-N motif	8030384	4002527	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	Double Clp-N motif	8042763	3001383	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	Double Clp-N motif	8042763	3001383	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Double Clp-N motif	8042763	3001383	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Double Clp-N motif	8042763	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)
D		e1khyD1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F:	ECOD (v294.1)
C		e1khyC1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F:	ECOD (v294.1)
B		e1khyB1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F:	ECOD (v294.1)
A	Clp_N	e1khyA1	A: alpha arrays	X: Histone-like	H: Histone-related	T: double Clp-N	F: Clp_N	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (4.3.0)
C	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (4.3.0)
B	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (4.3.0)
A	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF02861	Clp repeat (R) N-terminal domain (Clp_N)	Clp repeat (R) N-terminal domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	CLPB PROTEIN	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 identical protein binding protein binding	protein refolding primary metabolic process gene expression macromolecule biosynthetic process protein maturation protein folding biosynthetic process metabolic process cellular process protein metabolic process macromolecule metabolic process cellular response to stimulus cellular response to heat response to stimulus protein refolding primary metabolic process gene expression macromolecule biosynthetic process protein maturation protein folding biosynthetic process metabolic process cellular process protein metabolic process macromolecule metabolic process cellular response to stimulus cellular response to heat response to stimulus cellular response to stress response to stress response to heat response to abiotic stimulus response to temperature stimulus	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR001270	ClpA/B family	Family
A, B, C, D	IPR018368	ClpA/B, conserved site 1	Conserved Site
A, B, C, D	IPR041546	ClpA/ClpB, AAA lid domain	Domain
A, B, C, D	IPR004176	Clp, repeat (R) N-terminal domain	Domain
A, B, C, D	IPR050130	ATP-dependent Clp protease/Chaperone ClpA/ClpB	Family
A, B, C, D	IPR028299	ClpA/B, conserved site 2	Conserved Site
A, B, C, D	IPR017730	Chaperonin ClpB	Family
A, B, C, D	IPR003593	AAA+ ATPase domain	Domain
A, B, C, D	IPR003959	ATPase, AAA-type, core	Domain
A, B, C, D	IPR019489	Clp ATPase, C-terminal	Domain
A, B, C, D	IPR036628	Clp, N-terminal domain superfamily	Homologous Superfamily
A, B, C, D	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.