2QLV

Crystal structure of the heterotrimer core of the S. cerevisiae AMPK homolog SNF1

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	d2qlva1	Alpha and beta proteins (a+b)	TBP-like	KA1-like	Ssp2 C-terminal domain-like	Carbon catabolite-derepressing protein kinase SNF1	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
D	d2qlvd_	Alpha and beta proteins (a+b)	TBP-like	KA1-like	Ssp2 C-terminal domain-like	Carbon catabolite-derepressing protein kinase SNF1	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
B	d2qlvb1	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	AMPK-beta glycogen binding domain-like	SIP2	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
B	d2qlvb2	Alpha and beta proteins (a+b)	AMPKBI-like	AMPKBI-like	AMPKBI-like	SIP2	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
E	d2qlve1	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	AMPK-beta glycogen binding domain-like	SIP2	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
E	d2qlve2	Alpha and beta proteins (a+b)	AMPKBI-like	AMPKBI-like	AMPKBI-like	SIP2	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
C	d2qlvc1	Alpha and beta proteins (a+b)	CBS-domain pair	CBS-domain pair	CBS-domain pair	Nuclear protein SNF4	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
F	d2qlvf1	Alpha and beta proteins (a+b)	CBS-domain pair	CBS-domain pair	CBS-domain pair	Nuclear protein SNF4	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Ssp2 C-terminal domain-like	8023706	4002378	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	KA1-like	8036086	3001856	SCOP2 (2022-06-29)
B	SCOP2 Family	AMPKBI-like	8023709	4001835	SCOP2 (2022-06-29)
B	SCOP2 Family	AMPK-beta glycogen-binding domain-like	8055088	4007532	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	AMPKBI-like	8036089	3000446	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Starch-binding domain-like	8055089	3000816	SCOP2 (2022-06-29)
E	SCOP2B Superfamily	Starch-binding domain-like	8055089	3000816	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	CBS-domain pair	8043348	3000123	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	CBS-domain pair	8043348	3000123	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	PF16579	e2qlvA1	A: a+b two layers	X: TBP-like	H: Kinase associated domain 1, KA1 (From Topology)	T: Kinase associated domain 1, KA1	F: PF16579	ECOD (1.6)
D	PF16579	e2qlvD1	A: a+b two layers	X: TBP-like	H: Kinase associated domain 1, KA1 (From Topology)	T: Kinase associated domain 1, KA1	F: PF16579	ECOD (1.6)
B	PF16561	e2qlvB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF16561	ECOD (1.6)
B	PF04739	e2qlvB2	A: a+b two layers	X: AMPKBI-like (From Topology)	H: AMPKBI-like (From Topology)	T: AMPKBI-like	F: PF04739	ECOD (1.6)
E	PF16561	e2qlvE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF16561	ECOD (1.6)
E	PF04739	e2qlvE2	A: a+b two layers	X: AMPKBI-like (From Topology)	H: AMPKBI-like (From Topology)	T: AMPKBI-like	F: PF04739	ECOD (1.6)
C	PF00571	e2qlvC4	A: a+b duplicates or obligate multimers	X: CBS-domain (From Topology)	H: CBS-domain (From Topology)	T: CBS-domain	F: PF00571	ECOD (1.6)
F	PF00571	e2qlvF4	A: a+b duplicates or obligate multimers	X: CBS-domain (From Topology)	H: CBS-domain (From Topology)	T: CBS-domain	F: PF00571	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.310.80	Alpha Beta	2-Layer Sandwich	TATA-Binding Protein	Kinase associated domain 1, KA1	CATH (4.3.0)
D	3.30.310.80	Alpha Beta	2-Layer Sandwich	TATA-Binding Protein	Kinase associated domain 1, KA1	CATH (4.3.0)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B	2.20.25.290	Mainly Beta	Single Sheet	N-terminal domain of TfIIb		CATH (4.3.0)
E	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E	2.20.25.290	Mainly Beta	Single Sheet	N-terminal domain of TfIIb		CATH (4.3.0)
C	3.10.580.10	Alpha Beta	Roll	CBS-domain	CBS-domain	CATH (4.3.0)
F	3.10.580.10	Alpha Beta	Roll	CBS-domain	CBS-domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D	PF16579	Adenylate sensor of SNF1-like protein kinase (AdenylateSensor)	Adenylate sensor of SNF1-like protein kinase	AdenylateSensor is a family found at the C-terminus of SNF1-like protein kinases snf other protein-kinases [1].	Domain
C, F	PF00571	CBS domain (CBS)	CBS domain	CBS domains are small intracellular modules that pair together to form a stable globular domain [2]. This family represents a single CBS domain. Pairs of these domains have been termed a Bateman domain [6]. CBS domains have been shown to bind ligands ...	CBS domains are small intracellular modules that pair together to form a stable globular domain [2]. This family represents a single CBS domain. Pairs of these domains have been termed a Bateman domain [6]. CBS domains have been shown to bind ligands with an adenosyl group such as AMP, ATP and S-AdoMet [5]. CBS domains are found attached to a wide range of other protein domains suggesting that CBS domains may play a regulatory role making proteins sensitive to adenosyl carrying ligands. The region containing the CBS domains in Cystathionine-beta synthase is involved in regulation by S-AdoMet [4]. CBS domain pairs from AMPK bind AMP or ATP [5]. The CBS domains from IMPDH and the chloride channel CLC2 bind ATP [5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D	Carbon catabolite derepressing protein kinase	protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity AMP-activated protein kinase activity protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups protein serine kinase activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity AMP-activated protein kinase activity protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups protein serine kinase activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity molecular function activator activity identical protein binding protein binding	monosaccharide metabolic process regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process gluconeogenesis regulation of primary metabolic process positive regulation of metabolic process organic substance metabolic process regulation of small molecule metabolic process positive regulation of biosynthetic process organic substance biosynthetic process small molecule metabolic process regulation of carbohydrate metabolic process monosaccharide metabolic process regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process gluconeogenesis regulation of primary metabolic process positive regulation of metabolic process organic substance metabolic process regulation of small molecule metabolic process positive regulation of biosynthetic process organic substance biosynthetic process small molecule metabolic process regulation of carbohydrate metabolic process regulation of glucose metabolic process positive regulation of cellular process positive regulation of gluconeogenesis regulation of biosynthetic process carbohydrate metabolic process regulation of biological process small molecule biosynthetic process carbohydrate biosynthetic process cellular metabolic process biological regulation hexose metabolic process primary metabolic process monosaccharide biosynthetic process regulation of cellular metabolic process regulation of cellular biosynthetic process hexose biosynthetic process positive regulation of glucose metabolic process biosynthetic process regulation of gluconeogenesis metabolic process cellular process positive regulation of carbohydrate metabolic process regulation of carbohydrate biosynthetic process positive regulation of small molecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process glucose metabolic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process post-transcriptional regulation of gene expression negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process organonitrogen compound metabolic process regulation of protein metabolic process negative regulation of metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression negative regulation of biosynthetic process regulation of translation negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process growth filamentous growth invasive growth in response to glucose limitation invasive filamentous growth growth of unicellular organism as a thread of attached cells filamentous growth of a population of unicellular organisms response to organic substance response to stimulus response to topologically incorrect protein response to chemical response to stress response to unfolded protein establishment of organelle localization cellular localization microtubule cytoskeleton organization spindle localization establishment or maintenance of cell polarity mitotic cell cycle cellular component organization localization establishment of mitotic spindle localization establishment of spindle localization establishment of spindle orientation organelle localization establishment of localization in cell cell cycle cellular component organization or biogenesis microtubule cytoskeleton organization involved in mitosis cell cycle process establishment of localization establishment of cell polarity organelle organization mitotic cell cycle process establishment of mitotic spindle orientation microtubule-based process cytoskeleton organization catabolic process macroautophagy autophagy regulation of autophagy cellular catabolic process positive regulation of macroautophagy process utilizing autophagic mechanism positive regulation of autophagy regulation of catabolic process positive regulation of catabolic process regulation of macroautophagy regulation of cellular catabolic process positive regulation of cellular catabolic process regulation of growth regulation of cellular component organization regulation of growth of unicellular organism as a thread of attached cells regulation of filamentous growth of a population of unicellular organisms cell growth positive regulation of filamentous growth of a population of unicellular organisms regulation of filamentous growth regulation of pseudohyphal growth positive regulation of cell growth positive regulation of growth of unicellular organism as a thread of attached cells regulation of cell growth positive regulation of pseudohyphal growth positive regulation of growth pseudohyphal growth positive regulation of filamentous growth cell aggregation biofilm formation biological process involved in intraspecies interaction between organisms single-species biofilm formation single-species surface biofilm formation surface biofilm formation aggregation of unicellular organisms phosphorylation phosphate-containing compound metabolic process phosphorus metabolic process fungal-type cell wall organization cell wall assembly cell wall organization or biogenesis fungal-type cell wall assembly cell wall organization cellular component biogenesis fungal-type cell wall organization or biogenesis cell wall biogenesis cellular component assembly fungal-type cell wall biogenesis external encapsulating structure organization response to nutrient levels regulation of response to nutrient levels positive regulation of filamentous growth of a population of unicellular organisms in response to starvation positive regulation of response to stimulus regulation of response to stress response to starvation regulation of response to stimulus filamentous growth of a population of unicellular organisms in response to starvation regulation of filamentous growth of a population of unicellular organisms in response to starvation positive regulation of response to nutrient levels regulation of invasive growth in response to glucose limitation cellular response to stimulus signaling signal transduction intracellular signal transduction cell communication regulation of cellular response to glucose starvation regulation of cellular response to stress cellular response to starvation cellular response to nutrient levels cellular response to stress cellular response to glucose starvation response to endoplasmic reticulum stress	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle nuclear membrane membrane nucleus endomembrane system organelle envelope nuclear envelope membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle nuclear membrane membrane nucleus endomembrane system organelle envelope nuclear envelope organelle membrane membrane-enclosed lumen intracellular organelle lumen organelle envelope lumen organelle lumen nuclear envelope lumen cell division site cell cortex cellular bud neck cellular bud septin ring cleavage apparatus septin structure cell periphery cytoskeleton cellular bud neck septin structure cellular bud neck septin ring septin cytoskeleton intracellular non-membrane-bounded organelle non-membrane-bounded organelle site of polarized growth vacuolar membrane vacuole bounding membrane of organelle 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
B, E	Protein SIP2	protein binding binding kinase binding enzyme binding protein kinase binding enzyme-substrate adaptor activity protein-macromolecule adaptor activity molecular adaptor activity	regulation of biological process regulation of cellular process regulation of cellular component organization protein-containing complex organization biological regulation regulation of cellular component biogenesis cellular component biogenesis cellular component organization regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly cellular process cellular component organization or biogenesis growth regulation of biological process regulation of cellular process regulation of cellular component organization protein-containing complex organization biological regulation regulation of cellular component biogenesis cellular component biogenesis cellular component organization regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly cellular process cellular component organization or biogenesis growth filamentous growth invasive growth in response to glucose limitation invasive filamentous growth growth of unicellular organism as a thread of attached cells filamentous growth of a population of unicellular organisms cellular response to stimulus cellular response to nutrient levels response to nutrient levels response to stimulus cellular response to stress response to stress response to starvation cellular response to glucose starvation cellular response to starvation regulation of response to nutrient levels regulation of cellular response to glucose starvation regulation of cellular response to stress regulation of response to stimulus regulation of response to stress signaling signal transduction cell communication	cell periphery plasma membrane membrane cellular anatomical entity intracellular anatomical structure cytoplasm 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 cell periphery plasma membrane membrane cellular anatomical entity intracellular anatomical structure cytoplasm 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
C, F	Nuclear protein SNF4	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein binding kinase binding enzyme binding protein kinase binding enzyme regulator activity molecular function regulator activity protein kinase regulator activity kinase regulator activity cation binding AMP binding protein serine/threonine kinase activator activity kinase activator activity enzyme activator activity molecular function activator activity protein kinase activator activity identical protein binding	monosaccharide metabolic process regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process gluconeogenesis regulation of primary metabolic process positive regulation of metabolic process organic substance metabolic process regulation of small molecule metabolic process positive regulation of biosynthetic process organic substance biosynthetic process small molecule metabolic process regulation of carbohydrate metabolic process monosaccharide metabolic process regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process gluconeogenesis regulation of primary metabolic process positive regulation of metabolic process organic substance metabolic process regulation of small molecule metabolic process positive regulation of biosynthetic process organic substance biosynthetic process small molecule metabolic process regulation of carbohydrate metabolic process regulation of glucose metabolic process positive regulation of cellular process positive regulation of gluconeogenesis regulation of biosynthetic process carbohydrate metabolic process regulation of biological process small molecule biosynthetic process carbohydrate biosynthetic process cellular metabolic process biological regulation hexose metabolic process primary metabolic process monosaccharide biosynthetic process regulation of cellular metabolic process regulation of cellular biosynthetic process hexose biosynthetic process positive regulation of glucose metabolic process biosynthetic process regulation of gluconeogenesis metabolic process cellular process positive regulation of carbohydrate metabolic process regulation of carbohydrate biosynthetic process positive regulation of small molecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process glucose metabolic process growth filamentous growth cellular catabolic process catabolic process autophagy process utilizing autophagic mechanism cellular component organization peroxisome organization organelle organization cellular component organization or biogenesis RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process regulation of gene expression organic cyclic compound biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of growth regulation of growth of unicellular organism as a thread of attached cells regulation of filamentous growth of a population of unicellular organisms regulation of invasive growth in response to glucose limitation filamentous growth of a population of unicellular organisms regulation of filamentous growth invasive growth in response to glucose limitation growth of unicellular organism as a thread of attached cells invasive filamentous growth cellular response to stimulus response to nutrient levels regulation of response to nutrient levels response to stimulus regulation of cellular response to glucose starvation regulation of cellular response to stress cellular response to starvation cellular response to nutrient levels cellular response to stress regulation of response to stimulus regulation of response to stress response to stress response to starvation cellular response to glucose starvation	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen organelle envelope lumen intracellular organelle organelle envelope organelle lumen organelle nuclear envelope lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen organelle envelope lumen intracellular organelle organelle envelope organelle lumen organelle nuclear envelope lumen nuclear envelope cytoplasm cytosol cell periphery plasma membrane membrane 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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D	IPR017441	Protein kinase, ATP binding site	Binding Site
A, D	IPR013896	Carbon catabolite-derepressing protein kinase, ubiquitin-associated domain	Domain
A, D	IPR032270	AMPK, C-terminal adenylate sensor domain	Domain
A, D	IPR000719	Protein kinase domain	Domain
A, D	IPR028375	KA1 domain/Ssp2, C-terminal	Homologous Superfamily
A, D	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, D	IPR008271	Serine/threonine-protein kinase, active site	Active Site
B, E	IPR032640	AMP-activated protein kinase, glycogen-binding domain	Domain
B, E	IPR037256	ASC domain superfamily	Homologous Superfamily
B, E	IPR006828	Association with the SNF1 complex (ASC) domain	Domain
B, E	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B, E	IPR014756	Immunoglobulin E-set	Homologous Superfamily
C, F	IPR046342	CBS domain superfamily	Homologous Superfamily
C, F	IPR000644	CBS domain	Domain

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 R01GM133198.