4YEF | pdb_00004yef

beta1 carbohydrate binding module (CBM) of AMP-activated protein kinase (AMPK) in complex with glucosyl-beta-cyclododextrin

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)
A	d4yefa_	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	AMPK-beta glycogen binding domain-like	automated matches	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d4yefb1	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	AMPK-beta glycogen binding domain-like	automated matches	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d4yefb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
C	d4yefc_	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	AMPK-beta glycogen binding domain-like	automated matches	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
D	d4yefd_	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	AMPK-beta glycogen binding domain-like	automated matches	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
E	d4yefe1	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	AMPK-beta glycogen binding domain-like	automated matches	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
E	d4yefe2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
F	d4yeff_	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	AMPK-beta glycogen binding domain-like	automated matches	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
G	d4yefg_	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	AMPK-beta glycogen binding domain-like	automated matches	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Starch-binding domain-like	8055091	3000816	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Starch-binding domain-like	8055091	3000816	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Starch-binding domain-like	8055091	3000816	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Starch-binding domain-like	8055091	3000816	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Starch-binding domain-like	8055091	3000816	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Starch-binding domain-like	8055091	3000816	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Starch-binding domain-like	8055091	3000816	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	AMPK1_CBM	e4yefA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: AMPK1_CBM	ECOD (1.6)
B	AMPK1_CBM	e4yefB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: AMPK1_CBM	ECOD (1.6)
C	AMPK1_CBM	e4yefC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: AMPK1_CBM	ECOD (1.6)
D	AMPK1_CBM	e4yefD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: AMPK1_CBM	ECOD (1.6)
E	AMPK1_CBM	e4yefE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: AMPK1_CBM	ECOD (1.6)
F	AMPK1_CBM	e4yefF1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: AMPK1_CBM	ECOD (1.6)
G	AMPK1_CBM	e4yefG1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: AMPK1_CBM	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
F	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
G	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G	PF16561	Glycogen recognition site of AMP-activated protein kinase (AMPK1_CBM)	Glycogen recognition site of AMP-activated protein kinase	-	Family

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	5'-AMP-activated protein kinase subunit beta-1	protein binding binding kinase binding enzyme binding protein kinase binding	multicellular organismal process regulation of biological process regulation of cellular process homeostatic process biological regulation positive regulation of biological process adaptive thermogenesis positive regulation of metabolic process multicellular organismal-level homeostasis regulation of cold-induced thermogenesis cold-induced thermogenesis temperature homeostasis positive regulation of cold-induced thermogenesis positive regulation of multicellular organismal process multicellular organismal process regulation of biological process regulation of cellular process homeostatic process biological regulation positive regulation of biological process adaptive thermogenesis positive regulation of metabolic process multicellular organismal-level homeostasis regulation of cold-induced thermogenesis cold-induced thermogenesis temperature homeostasis positive regulation of cold-induced thermogenesis positive regulation of multicellular organismal process cellular process metabolic process regulation of multicellular organismal process regulation of metabolic process positive regulation of cellular process fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process oxoacid metabolic process carboxylic acid metabolic process lipid biosynthetic process primary metabolic process organic acid biosynthetic process organic acid metabolic process fatty acid biosynthetic process carboxylic acid biosynthetic process biosynthetic process small molecule metabolic process monocarboxylic acid metabolic process lipid metabolic process cellular response to stimulus cellular response to nutrient levels response to nutrient levels response to stimulus developmental process multicellular organism development nail development limb development appendage development anatomical structure development signaling signal transduction cell communication	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein kinase complex transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex transferase complex intracellular protein-containing complex nucleotide-activated protein kinase complex membrane-bounded organelle intracellular organelle organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein kinase complex transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex transferase complex intracellular protein-containing complex nucleotide-activated protein kinase complex membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G	IPR032640	AMP-activated protein kinase, glycogen-binding domain	Domain
A, B, C, D, E A, B, C, D, E, F, G	IPR037256	ASC domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G	IPR006828	Association with the SNF1 complex (ASC) domain	Domain
A, B, C, D, E A, B, C, D, E, F, G	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G	IPR050827	CRP1/MDG1 DNA-binding & kinase subunit	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.