3V2U | pdb_00003v2u

Crystal structure of the yeast GAL regulon complex of the repressor, Gal80p, and the transducer, Gal3p, with galactose and ATP

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	GAPDH-like	8084461	3000043	SCOP2B (2022-06-29)
A	SCOP2 Family	Glucose 6-phosphate dehydrogenase-like	8084460	4000091	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	GAPDH-like	8084461	3000043	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B		e3v2uB5	A: Fusion glycoprotein F2	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: PUA	F:	ECOD (20:10:01)
A		e3v2uA1	A: cradle loop barrel	X: RIFT-related	H: acid protease	T: I-set	F:	ECOD (20:10:01)
A		e3v2uA2	A: jelly-roll	X: Double-stranded beta-helix	H: Double-stranded beta-helix	T: zf-MYND	F:	ECOD (20:10:01)
D		e3v2uD3	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Ank_2, Ank_4, Ank_5	F:	ECOD (20:10:01)
C		e3v2uC1	A: Single-stranded left-handed beta-helix	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: DNA_topoisoIV	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
B	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
A	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
D	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (utative)
D	3.30.70.3170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (utative)
D	1.20.1440.340	Mainly Alpha	Up-down Bundle	de novo design (two linked rop proteins)		CATH (utative)
C	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (utative)
C	3.30.70.3170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (utative)
C	1.20.1440.340	Mainly Alpha	Up-down Bundle	de novo design (two linked rop proteins)		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF22685	Gal80p, C-terminal domain (Gal80p_C-like)	Gal80p, C-terminal domain	This domain is found in the homologues of Gal80p, an yeast regulatory protein closely related to glucose-fructose oxidoreductase. In Gal80p, this domain is likely involved in the binding of Gal4p [1].	Domain
A, B	PF01408	Oxidoreductase family, NAD-binding Rossmann fold (GFO_IDH_MocA)	Oxidoreductase family, NAD-binding Rossmann fold	This entry represents the N-terminal domain of a group of enzymes that utilise NADP or NAD, known as the GFO/IDH/MOCA family, which includes enzymes that catalyse different chemical reactions such as oxidation and reduction of carbohydrates, oxidatio ...	This entry represents the N-terminal domain of a group of enzymes that utilise NADP or NAD, known as the GFO/IDH/MOCA family, which includes enzymes that catalyse different chemical reactions such as oxidation and reduction of carbohydrates, oxidation of trans-dihydrodiols, reduction of biliverdin and hydrolysation of glycosidic bonds. This domain adopts a a typical Rossmann fold.	Domain
C, D	PF08544	GHMP kinases C terminal (GHMP_kinases_C)	GHMP kinases C terminal	This family includes homoserine kinases, galactokinases and mevalonate kinases.	Domain
C, D	PF10509	Galactokinase galactose-binding signature (GalKase_gal_bdg)	Galactokinase galactose-binding signature	This is the highly conserved galactokinase signature sequence which appears to be present in all galactokinases irrespective of how many other ATP binding sites, etc that they carry [1]. The function of this domain appears to be to bind galactose [2] ...	This is the highly conserved galactokinase signature sequence which appears to be present in all galactokinases irrespective of how many other ATP binding sites, etc that they carry [1]. The function of this domain appears to be to bind galactose [2], and the domain is normally at the N-terminus of the enzymes, EC:2.7.1.6 [3]. This domain is associated with the families GHMP_kinases_C, Pfam:PF08544 and GHMP_kinases_N, Pfam:PF00288.	Domain
C, D	PF00288	GHMP kinases N terminal domain (GHMP_kinases_N)	GHMP kinases N terminal domain	This entry represents a conserved domain with a Gly/Ser-rich region found in galacto-, homoserine, mevalonate and phosphomevalonate kinases (GHMP) which is involved in the binding of ATP [1,2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Galactose/lactose metabolism regulatory protein GAL80	DNA binding binding nucleic acid binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding DNA-binding transcription factor binding enzyme regulator activity molecular function inhibitor activity molecular function regulator activity DNA binding binding nucleic acid binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding DNA-binding transcription factor binding enzyme regulator activity molecular function inhibitor activity molecular function regulator activity enzyme inhibitor activity kinase inhibitor activity kinase regulator activity identical protein binding	cellular response to stimulus regulation of cellular process response to stimulus regulation of transcription from RNA polymerase II promoter by galactose carbon catabolite regulation of transcription positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process cellular response to stimulus regulation of cellular process response to stimulus regulation of transcription from RNA polymerase II promoter by galactose carbon catabolite regulation of transcription positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II regulation of biological process positive regulation of transcription by galactose primary metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process regulation of gene expression cellular response to nutrient levels carbon catabolite regulation of transcription from RNA polymerase II promoter biosynthetic process carbon catabolite activation of transcription from RNA polymerase II promoter response to chemical metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process carbon catabolite activation of transcription response to nutrient levels positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of biosynthetic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of transcription by galactose regulation of biosynthetic process biological regulation response to nutrient regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of transcription from RNA polymerase II promoter by galactose cellular response to chemical stimulus positive regulation of RNA biosynthetic process cellular process cellular response to nutrient negative regulation of biological process negative regulation of RNA biosynthetic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process monosaccharide metabolic process carbohydrate metabolic process hexose metabolic process small molecule metabolic process galactose metabolic process	protein-containing complex transcription regulator complex transcription repressor complex cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle
C, D	Protein GAL3	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 galactokinase activity carbohydrate kinase activity kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups	maintenance of protein location localization macromolecule localization intracellular protein localization maintenance of location cellular response to stimulus regulation of cellular process response to stimulus regulation of transcription from RNA polymerase II promoter by galactose carbon catabolite regulation of transcription positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process maintenance of protein location localization macromolecule localization intracellular protein localization maintenance of location cellular response to stimulus regulation of cellular process response to stimulus regulation of transcription from RNA polymerase II promoter by galactose carbon catabolite regulation of transcription positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II regulation of biological process positive regulation of transcription by galactose primary metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process regulation of gene expression cellular response to nutrient levels carbon catabolite regulation of transcription from RNA polymerase II promoter biosynthetic process carbon catabolite activation of transcription from RNA polymerase II promoter response to chemical metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process carbon catabolite activation of transcription response to nutrient levels positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of biosynthetic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of transcription by galactose regulation of biosynthetic process biological regulation response to nutrient regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of transcription from RNA polymerase II promoter by galactose cellular response to chemical stimulus positive regulation of RNA biosynthetic process cellular process cellular response to nutrient monosaccharide metabolic process carbohydrate metabolic process hexose metabolic process small molecule metabolic process galactose metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator 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	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, B	IPR055080	Gal80p-like, C-terminal domain	Domain
A, B	IPR051317	Gfo/Idh/MocA family oxidoreductases	Family
A, B	IPR000683	Gfo/Idh/MocA-like oxidoreductase, N-terminal	Domain
C, D	IPR013750	GHMP kinase, C-terminal domain	Domain
C, D	IPR006206	Mevalonate/galactokinase	Family
C, D	IPR019539	Galactokinase, N-terminal domain	Domain
C, D	IPR036554	GHMP kinase, C-terminal domain superfamily	Homologous Superfamily
C, D	IPR006204	GHMP kinase N-terminal domain	Domain
C, D	IPR019741	Galactokinase, conserved site	Conserved Site
C, D	IPR000705	Galactokinase	Family
C, D	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
C, D	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	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.