1S4E | pdb_00001s4e

Pyrococcus furiosus galactokinase in complex with galactose, ADP and magnesium

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)
I	d1s4ei1	Alpha and beta proteins (a+b)	Ribosomal protein S5 domain 2-like	Ribosomal protein S5 domain 2-like	GHMP Kinase, N-terminal domain	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
I	d1s4ei2	Alpha and beta proteins (a+b)	Ferredoxin-like	GHMP Kinase, C-terminal domain	Galactokinase	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
H	d1s4eh1	Alpha and beta proteins (a+b)	Ribosomal protein S5 domain 2-like	Ribosomal protein S5 domain 2-like	GHMP Kinase, N-terminal domain	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
H	d1s4eh2	Alpha and beta proteins (a+b)	Ferredoxin-like	GHMP Kinase, C-terminal domain	Galactokinase	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
G	d1s4eg1	Alpha and beta proteins (a+b)	Ribosomal protein S5 domain 2-like	Ribosomal protein S5 domain 2-like	GHMP Kinase, N-terminal domain	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
G	d1s4eg2	Alpha and beta proteins (a+b)	Ferredoxin-like	GHMP Kinase, C-terminal domain	Galactokinase	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
F	d1s4ef1	Alpha and beta proteins (a+b)	Ribosomal protein S5 domain 2-like	Ribosomal protein S5 domain 2-like	GHMP Kinase, N-terminal domain	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
F	d1s4ef2	Alpha and beta proteins (a+b)	Ferredoxin-like	GHMP Kinase, C-terminal domain	Galactokinase	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
E	d1s4ee1	Alpha and beta proteins (a+b)	Ribosomal protein S5 domain 2-like	Ribosomal protein S5 domain 2-like	GHMP Kinase, N-terminal domain	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
E	d1s4ee2	Alpha and beta proteins (a+b)	Ferredoxin-like	GHMP Kinase, C-terminal domain	Galactokinase	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
D	d1s4ed1	Alpha and beta proteins (a+b)	Ribosomal protein S5 domain 2-like	Ribosomal protein S5 domain 2-like	GHMP Kinase, N-terminal domain	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
D	d1s4ed2	Alpha and beta proteins (a+b)	Ferredoxin-like	GHMP Kinase, C-terminal domain	Galactokinase	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
C	d1s4ec1	Alpha and beta proteins (a+b)	Ribosomal protein S5 domain 2-like	Ribosomal protein S5 domain 2-like	GHMP Kinase, N-terminal domain	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
C	d1s4ec2	Alpha and beta proteins (a+b)	Ferredoxin-like	GHMP Kinase, C-terminal domain	Galactokinase	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
B	d1s4eb1	Alpha and beta proteins (a+b)	Ribosomal protein S5 domain 2-like	Ribosomal protein S5 domain 2-like	GHMP Kinase, N-terminal domain	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
B	d1s4eb2	Alpha and beta proteins (a+b)	Ferredoxin-like	GHMP Kinase, C-terminal domain	Galactokinase	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
A	d1s4ea1	Alpha and beta proteins (a+b)	Ribosomal protein S5 domain 2-like	Ribosomal protein S5 domain 2-like	GHMP Kinase, N-terminal domain	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
A	d1s4ea2	Alpha and beta proteins (a+b)	Ferredoxin-like	GHMP Kinase, C-terminal domain	Galactokinase	Galactokinase	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
I	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8041331	3000100	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	GHMP Kinase, C-terminal domain	8041332	3001245	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	GHMP Kinase, C-terminal domain	8041332	3001245	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8041331	3000100	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	GHMP Kinase, C-terminal domain	8041332	3001245	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8041331	3000100	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	GHMP Kinase, C-terminal domain	8041332	3001245	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	GHMP Kinase, C-terminal domain	8041332	3001245	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8041331	3000100	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8041331	3000100	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GHMP Kinase, C-terminal domain	8041332	3001245	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	GHMP Kinase, C-terminal domain	8041332	3001245	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8041331	3000100	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	GHMP Kinase, C-terminal domain	8041332	3001245	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8041331	3000100	SCOP2B (2022-06-29)
A	SCOP2 Family	GHMP Kinase, N-terminal domain	8028952	4000959	SCOP2 (2022-06-29)
A	SCOP2 Family	Galactokinase	8028953	4001389	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Ribosomal protein S5 domain 2-like	8041331	3000100	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	GHMP Kinase, C-terminal domain	8041332	3001245	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)
I	Propep_M14	e1s4eI1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: Propep_M14	ECOD (v294.1)
I	Staphylokinase	e1s4eI2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Staphylokinase	ECOD (v294.1)
H	Propep_M14	e1s4eH1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: Propep_M14	ECOD (v294.1)
H	Staphylokinase	e1s4eH2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Staphylokinase	ECOD (v294.1)
G	Pkinase, PK_Tyr_Ser-Thr	e1s4eG1	A: a/b three-layered sandwiches	X: YrdC/RibB	H: YrdC/RibB	T: YrdC/RibB	F: Pkinase, PK_Tyr_Ser-Thr	ECOD (v294.1)
F	Propep_M14	e1s4eF1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: Propep_M14	ECOD (v294.1)
F	Staphylokinase	e1s4eF2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Staphylokinase	ECOD (v294.1)
E	Propep_M14	e1s4eE1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: Propep_M14	ECOD (v294.1)
E	Staphylokinase	e1s4eE2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Staphylokinase	ECOD (v294.1)
D	Propep_M14	e1s4eD1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: Propep_M14	ECOD (v294.1)
D	Staphylokinase	e1s4eD2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Staphylokinase	ECOD (v294.1)
C	Propep_M14	e1s4eC1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: Propep_M14	ECOD (v294.1)
C	Staphylokinase	e1s4eC2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Staphylokinase	ECOD (v294.1)
B	FERM_N_2	e1s4eB3	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: FERM_N_2	ECOD (v294.1)
A	GHMP_kinases_C	e1s4eA1	A: a+b two layers	X: Alpha-beta plaits	H: GHMP Kinase, C-terminal domain	T: GHMP Kinase, C-terminal domain	F: GHMP_kinases_C	ECOD (v294.1)
A	Staphylokinase	e1s4eA2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Staphylokinase	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
I	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
I	3.30.70.890	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	GHMP kinase, C-terminal domain	CATH (4.3.0)
H	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
H	3.30.70.890	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	GHMP kinase, C-terminal domain	CATH (4.3.0)
G	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
G	3.30.70.890	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	GHMP kinase, C-terminal domain	CATH (4.3.0)
F	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
F	3.30.70.890	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	GHMP kinase, C-terminal domain	CATH (4.3.0)
E	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
E	3.30.70.890	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	GHMP kinase, C-terminal domain	CATH (4.3.0)
D	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
D	3.30.70.890	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	GHMP kinase, C-terminal domain	CATH (4.3.0)
C	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
C	3.30.70.890	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	GHMP kinase, C-terminal domain	CATH (4.3.0)
B	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
B	3.30.70.890	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	GHMP kinase, C-terminal domain	CATH (4.3.0)
A	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.3.0)
A	3.30.70.890	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	GHMP kinase, C-terminal domain	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, H, I	PF08544	GHMP kinases C terminal (GHMP_kinases_C)	GHMP kinases C terminal	This family includes homoserine kinases, galactokinases and mevalonate kinases.	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	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
A, B, C, D, E A, B, C, D, E, F, G, H, I	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, C, D, E A, B, C, D, E, F, G, H, I	Galactokinase	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 galactose binding monosaccharide binding carbohydrate binding galactokinase activity carbohydrate kinase activity kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups	monosaccharide metabolic process carbohydrate metabolic process hexose metabolic process small molecule metabolic process metabolic process cellular process primary metabolic process galactose metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR022963	Galactokinase, bacterial	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR013750	GHMP kinase, C-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR006206	Mevalonate/galactokinase	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR019539	Galactokinase, N-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR036554	GHMP kinase, C-terminal domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR006204	GHMP kinase N-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR019741	Galactokinase, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR006203	GHMP kinase, ATP-binding, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR000705	Galactokinase	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I	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.