1DKD | pdb_00001dkd

CRYSTAL STRUCTURE OF A GROEL (APICAL DOMAIN) AND A DODECAMERIC PEPTIDE COMPLEX

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
A	d1dkda_	Alpha and beta proteins (a/b)	The 'swivelling' beta/beta/alpha domain	GroEL apical domain-like	GroEL-like chaperone, apical domain	GroEL, A domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C [auth B]	d1dkdb_	Alpha and beta proteins (a/b)	The 'swivelling' beta/beta/alpha domain	GroEL apical domain-like	GroEL-like chaperone, apical domain	GroEL, A domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E [auth C]	d1dkdc_	Alpha and beta proteins (a/b)	The 'swivelling' beta/beta/alpha domain	GroEL apical domain-like	GroEL-like chaperone, apical domain	GroEL, A domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
G [auth D]	d1dkdd_	Alpha and beta proteins (a/b)	The 'swivelling' beta/beta/alpha domain	GroEL apical domain-like	GroEL-like chaperone, apical domain	GroEL, A domain	(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)
A	SCOP2B Superfamily	GroEL apical domain-like	8043929	3000963	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	GroEL apical domain-like	8043929	3000963	SCOP2B (2022-06-29)
E [auth C]	SCOP2B Superfamily	GroEL apical domain-like	8043929	3000963	SCOP2B (2022-06-29)
G [auth D]	SCOP2B Superfamily	GroEL apical domain-like	8043929	3000963	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	Glyco_hydro_20b	e1dkdA1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Glyco_hydro_20b	ECOD (v294.1)
C [auth B]	Glyco_hydro_20b	e1dkdB1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Glyco_hydro_20b	ECOD (v294.1)
E [auth C]	Glyco_hydro_20b	e1dkdC1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Glyco_hydro_20b	ECOD (v294.1)
G [auth D]	Glyco_hydro_20b	e1dkdD1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Glyco_hydro_20b	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.50.7.10	Alpha Beta	3-Layer(bba) Sandwich	GroEL	GroEL	CATH (4.3.0)
C [auth B]	3.50.7.10	Alpha Beta	3-Layer(bba) Sandwich	GroEL	GroEL	CATH (4.3.0)
E [auth C]	3.50.7.10	Alpha Beta	3-Layer(bba) Sandwich	GroEL	GroEL	CATH (4.3.0)
G [auth D]	3.50.7.10	Alpha Beta	3-Layer(bba) Sandwich	GroEL	GroEL	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C [auth B], E [auth C], G [auth D]	GROEL	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding unfolded protein binding protein binding isomerase activity catalytic activity 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 ATP-dependent activity ATP-dependent protein folding chaperone protein folding chaperone identical 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 virion assembly viral process viral life cycle 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 virion assembly viral process viral life cycle response to stimulus response to radiation response to abiotic stimulus response to stress response to heat response to temperature stimulus	cellular anatomical structure membrane protein-containing complex chaperonin ATPase complex intracellular anatomical structure protein folding chaperone complex GroEL-GroES complex cytoplasm cytosol intracellular protein-containing complex
B [auth E], D [auth F], F [auth G], H	12-MER PEPTIDE	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth B], E [auth C], G [auth D]	IPR027413	GroEL-like equatorial domain superfamily	Homologous Superfamily
A, C [auth B], E [auth C], G [auth D]	IPR027410	TCP-1-like chaperonin intermediate domain superfamily	Homologous Superfamily
A, C [auth B], E [auth C], G [auth D]	IPR001844	Chaperonin Cpn60/GroEL	Family
A, C [auth B], E [auth C], G [auth D]	IPR018370	Chaperonin Cpn60, conserved site	Conserved Site
A, C [auth B], E [auth C], G [auth D]	IPR027409	GroEL-like apical domain superfamily	Homologous Superfamily
A, C [auth B], E [auth C], G [auth D]	IPR002423	Chaperonin Cpn60/GroEL/TCP-1 family	Family

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.