1YZY

Crystal structure of Haemophilus influenzae protein HI1011, Pfam DUF1537

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	d1yzya1	Alpha and beta proteins (a/b)	YgbK-like	YgbK-like	YgbK-like	Hypothetical protein HI1011	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
B	d1yzyb_	Alpha and beta proteins (a/b)	YgbK-like	YgbK-like	YgbK-like	Hypothetical protein HI1011	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	YgbK-like	8022677	4003267	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	YgbK-like	8035057	3000531	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	YgbK-like	8035057	3000531	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	DUF1537	e1yzyA1	A: a/b three-layered sandwiches	X: YgbK-like (From Topology)	H: YgbK-like (From Topology)	T: YgbK-like	F: DUF1537	ECOD (1.6)
A	DUF1357_C_1	e1yzyA2	A: a/b three-layered sandwiches	X: YgbK-like (From Topology)	H: YgbK-like (From Topology)	T: YgbK-like	F: DUF1357_C_1	ECOD (1.6)
B	DUF1537	e1yzyB1	A: a/b three-layered sandwiches	X: YgbK-like (From Topology)	H: YgbK-like (From Topology)	T: YgbK-like	F: DUF1537	ECOD (1.6)
B	DUF1357_C_1	e1yzyB2	A: a/b three-layered sandwiches	X: YgbK-like (From Topology)	H: YgbK-like (From Topology)	T: YgbK-like	F: DUF1357_C_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.10840	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Putative sugar-binding, N-terminal domain	CATH (4.3.0)
A	3.40.980.20	Alpha Beta	3-Layer(aba) Sandwich	Molybdenum Cofactor Biosythetic Enzyme	Chain A	CATH (4.3.0)
B	3.40.50.10840	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Putative sugar-binding, N-terminal domain	CATH (4.3.0)
B	3.40.980.20	Alpha Beta	3-Layer(aba) Sandwich	Molybdenum Cofactor Biosythetic Enzyme	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF17042	Nucleotide-binding C-terminal domain (NBD_C)	Nucleotide-binding C-terminal domain	This is the C-terminal domain found in proteins in a range of Proteobacteria as well as the Gram-positive Oceanobacillus iheyensis. Structural analysis of the whole protein indicates the N- and C-termini act together to produce a surface into which a ...	This is the C-terminal domain found in proteins in a range of Proteobacteria as well as the Gram-positive Oceanobacillus iheyensis. Structural analysis of the whole protein indicates the N- and C-termini act together to produce a surface into which a threonate-ADP complex is bound, demonstrating that a sugar binding site is on the N-terminal domain, and a nucleotide binding site is in the C-terminal domain [1]. There is a critical motif, DDXTG, at approximately residues 22-25. Proteins containing this domain have been predicted as kinases. Some members are associated with PdxA2 by physical clustering and gene fusion with PdxA2. Some members that are fused with PdxA2 have been shown to be involved in L-4-hydroxythreonine (4HT) phosphorylation, part of the alternative pathway to make PLP (pyridoxal 5'-phosphate) out of a toxic metabolite, 4HT. However, 4HT phosphorylation might not be the main function of this group of proteins. Moreover, some members that are not associated with pdxA2, and even one that is associated with pdxA2, have lost 4HT kinase activity [2]. Functional analysis demonstrate that family members include D-Threonate kinases (DtnK), D-Erythronate kinases (DenK) and 3-Oxo-tetronate kinases (OtnK) [1].	Domain
A, B	PF07005	Sugar-binding N-terminal domain (SBD_N)	Sugar-binding N-terminal domain	This is the N-terminal domain found in proteins in a range of Proteobacteria as well as the Gram-positive Oceanobacillus iheyensis. Structural analysis of the whole protein indicates the N- and C-termini act together to produce a surface into which a ...	This is the N-terminal domain found in proteins in a range of Proteobacteria as well as the Gram-positive Oceanobacillus iheyensis. Structural analysis of the whole protein indicates the N- and C-termini act together to produce a surface into which a threonate-ADP complex is bound, demonstrating that a sugar binding site is on the N-terminal domain, and a nucleotide binding site is in the C-terminal domain [1]. There is a critical motif, DDXTG, at approximately residues 22-25. Proteins containing this domain have been predicted as kinases. Some members are associated with PdxA2 by physical clustering and gene fusion with PdxA2. Some members that are fused with PdxA2 have been shown to be involved in L-4-hydroxythreonine (4HT) phosphorylation, part of the alternative pathway to make PLP (pyridoxal 5'-phosphate) out of a toxic metabolite, 4HT. However, 4HT phosphorylation might not be the main function of this group of proteins. Moreover, some members that are not associated with pdxA2, and even one that is associated with pdxA2, have lost 4HT kinase activity [2]. Functional analysis demonstrate that family members include D-Threonate kinases (DtnK), D-Erythronate kinases (DenK) and 3-Oxo-tetronate kinases (OtnK) [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Hypothetical protein HI1011	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	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR031475	Four-carbon acid sugar kinase, nucleotide binding domain	Domain
A, B	IPR042213	Four-carbon acid sugar kinase, nucleotide binding domain superfamily	Homologous Superfamily
A, B	IPR037051	Four-carbon acid sugar kinase, N-terminal domain superfamily	Homologous Superfamily
A, B	IPR050007	3-oxo-tetronate kinase	Family
A, B	IPR010737	Four-carbon acid sugar kinase, N-terminal 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 R01GM157729.