3S4Y | pdb_00003s4y

Crystal structure of human thiamin pyrophosphokinase 1

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d3s4yb2	All beta proteins	Double-stranded beta-helix	Thiamin pyrophosphokinase, substrate-binding domain	Thiamin pyrophosphokinase, substrate-binding domain	Thiamin pyrophosphokinase, substrate-binding domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3s4yb1	Alpha and beta proteins (a/b)	Thiamin pyrophosphokinase, catalytic domain	Thiamin pyrophosphokinase, catalytic domain	Thiamin pyrophosphokinase, catalytic domain	Thiamin pyrophosphokinase, catalytic domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3s4ya2	All beta proteins	Double-stranded beta-helix	Thiamin pyrophosphokinase, substrate-binding domain	Thiamin pyrophosphokinase, substrate-binding domain	Thiamin pyrophosphokinase, substrate-binding domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3s4ya1	Alpha and beta proteins (a/b)	Thiamin pyrophosphokinase, catalytic domain	Thiamin pyrophosphokinase, catalytic domain	Thiamin pyrophosphokinase, catalytic domain	Thiamin pyrophosphokinase, catalytic domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	YjeF_N	e3s4yB1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: YjeF_N	ECOD (v294.1)
A	Anemone_cytotox	e3s4yA1	A: a/b three-layered sandwiches	X: EF-hand	H: Insect pheromone/odorant-binding proteins	T: Insect pheromone/odorant-binding proteins	F: Anemone_cytotox	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.10240	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Thiamin pyrophosphokinase, catalytic domain	CATH (4.3.0)
A	3.40.50.10240	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Thiamin pyrophosphokinase, catalytic domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF04265	Thiamin pyrophosphokinase, vitamin B1 binding domain (TPK_B1_binding)	Thiamin pyrophosphokinase, vitamin B1 binding domain	Family of thiamin pyrophosphokinase (EC:2.7.6.2). Thiamin pyrophosphokinase (TPK) catalyses the transfer of a pyrophosphate group from ATP to vitamin B1 (thiamin) to form the coenzyme thiamin pyrophosphate (TPP). Thus, TPK is important for the format ...	Family of thiamin pyrophosphokinase (EC:2.7.6.2). Thiamin pyrophosphokinase (TPK) catalyses the transfer of a pyrophosphate group from ATP to vitamin B1 (thiamin) to form the coenzyme thiamin pyrophosphate (TPP). Thus, TPK is important for the formation of a coenzyme required for central metabolic functions. The structure of thiamin pyrophosphokinase suggest that the enzyme may operate by a mechanism of pyrophosphoryl transfer similar to those described for pyrophosphokinases functioning in nucleotide biosynthesis [1].	Domain
A, B	PF04263	Thiamin pyrophosphokinase, catalytic domain (TPK_catalytic)	Thiamin pyrophosphokinase, catalytic domain	Family of thiamin pyrophosphokinase (EC:2.7.6.2). Thiamin pyrophosphokinase (TPK) catalyses the transfer of a pyrophosphate group from ATP to vitamin B1 (thiamin) to form the coenzyme thiamin pyrophosphate (TPP). Thus, TPK is important for the format ...	Family of thiamin pyrophosphokinase (EC:2.7.6.2). Thiamin pyrophosphokinase (TPK) catalyses the transfer of a pyrophosphate group from ATP to vitamin B1 (thiamin) to form the coenzyme thiamin pyrophosphate (TPP). Thus, TPK is important for the formation of a coenzyme required for central metabolic functions. The structure of thiamin pyrophosphokinase suggest that the enzyme may operate by a mechanism of pyrophosphoryl transfer similar to those described for pyrophosphokinases functioning in nucleotide biosynthesis [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Thiamin pyrophosphokinase 1	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 kinase activity transferase activity catalytic activity transferase activity, transferring phosphorus-containing groups diphosphotransferase activity UTP thiamine diphosphokinase activity cation binding vitamin binding thiamine binding alcohol binding sulfur compound binding thiamine diphosphokinase activity identical protein binding protein binding	pyrimidine-containing compound metabolic process thiamine-containing compound metabolic process sulfur compound metabolic process metabolic process cellular process alcohol metabolic process small molecule metabolic process thiamine metabolic process primary alcohol metabolic process water-soluble vitamin biosynthetic process small molecule biosynthetic process vitamin biosynthetic process vitamin metabolic process sulfur compound biosynthetic process pyrimidine-containing compound metabolic process thiamine-containing compound metabolic process sulfur compound metabolic process metabolic process cellular process alcohol metabolic process small molecule metabolic process thiamine metabolic process primary alcohol metabolic process water-soluble vitamin biosynthetic process small molecule biosynthetic process vitamin biosynthetic process vitamin metabolic process sulfur compound biosynthetic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process thiamine diphosphate metabolic process pyrimidine-containing compound biosynthetic process phosphorus metabolic process thiamine diphosphate biosynthetic process thiamine-containing compound biosynthetic process aerobic respiration regulation of acyl-CoA biosynthetic process regulation of cellular process oxoacid metabolic process regulation of lipid metabolic process acetyl-CoA metabolic process organic acid metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of sulfur metabolic process regulation of small molecule metabolic process regulation of nucleobase-containing compound metabolic process nucleoside phosphate metabolic process pyruvate metabolic process regulation of biological process pyruvate decarboxylation to acetyl-CoA primary metabolic process regulation of ketone metabolic process nucleoside phosphate biosynthetic process regulation of fatty acid metabolic process regulation of phosphorus metabolic process monocarboxylic acid metabolic process regulation of metabolic process cellular respiration energy derivation by oxidation of organic compounds ketone metabolic process acyl-CoA metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process acyl-CoA biosynthetic process regulation of pyruvate decarboxylation to acetyl-CoA regulation of biosynthetic process fatty acid metabolic process biological regulation carboxylic acid metabolic process generation of precursor metabolites and energy nucleobase-containing compound biosynthetic process purine-containing compound metabolic process acetyl-CoA biosynthetic process lipid metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR036759	Thiamin pyrophosphokinase, catalytic domain superfamily	Homologous Superfamily
A, B	IPR006282	Thiamin pyrophosphokinase	Family
A, B	IPR007373	Thiamin pyrophosphokinase, thiamin-binding domain	Domain
A, B	IPR016966	Thiamin pyrophosphokinase, eukaryotic	Family
A, B	IPR036371	Thiamin pyrophosphokinase, thiamin-binding domain superfamily	Homologous Superfamily
A, B	IPR007371	Thiamin pyrophosphokinase, catalytic domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q9H3S4	childhood encephalopathy due to thiamine pyrophosphokinase deficiency subependymal giant cell astrocytoma ulcerative colitis astrocytic tumor Crohn disease Leigh syndrome Mitochondrial Diseases osteosarcoma pancreatic intraductal papillary-mucinous carcinoma prostate carcinoma transitional cell carcinoma breast carcinoma intellectual disability lung cancer non-small cell lung carcinoma childhood encephalopathy due to thiamine pyrophosphokinase deficiency subependymal giant cell astrocytoma ulcerative colitis astrocytic tumor Crohn disease Leigh syndrome Mitochondrial Diseases osteosarcoma pancreatic intraductal papillary-mucinous carcinoma prostate carcinoma transitional cell carcinoma breast carcinoma intellectual disability lung cancer non-small cell lung carcinoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pterygium tuberculosis large cell medulloblastoma malignant ependymoma oligodendroglioma ovarian carcinoma primitive neuroectodermal tumor

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.