5YA1 | pdb_00005ya1

crystal structure of LsrK-HPr complex with ATP

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)
D	d5ya1d_	Alpha and beta proteins (a+b)	HPr-like	HPr-like	HPr-like	Histidine-containing phosphocarrier protein (HPr)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C	d5ya1c_	Alpha and beta proteins (a+b)	HPr-like	HPr-like	HPr-like	Histidine-containing phosphocarrier protein (HPr)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	HPr-like	8035735	3000259	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	HPr-like	8035735	3000259	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)
D		e5ya1D1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Chlorophyllase2	F:	ECOD (20:10:01)
C		e5ya1C1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Chlorophyllase2	F:	ECOD (20:10:01)
B		e5ya1B1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Chlorophyllase2	F:	ECOD (20:10:01)
A		e5ya1A1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Chlorophyllase2	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.30.1340.10	Alpha Beta	2-Layer Sandwich	Histidine-containing Protein	Chain: A	CATH (4.3.0)
C	3.30.1340.10	Alpha Beta	2-Layer Sandwich	Histidine-containing Protein	Chain: A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, D	PF00381	PTS HPr component phosphorylation site (PTS-HPr)	PTS HPr component phosphorylation site		Domain
A, B	PF00370	FGGY family of carbohydrate kinases, N-terminal domain (FGGY_N)	FGGY family of carbohydrate kinases, N-terminal domain	This domain adopts a ribonuclease H-like fold and is structurally related to the C-terminal domain.	Domain
A, B	PF02782	FGGY family of carbohydrate kinases, C-terminal domain (FGGY_C)	FGGY family of carbohydrate kinases, C-terminal domain	This domain adopts a ribonuclease H-like fold and is structurally related to the N-terminal domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	Phosphocarrier protein HPr	enzyme regulator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein binding binding antisigma factor binding molecular function inhibitor activity enzyme inhibitor activity transferase activity phosphotransferase activity, nitrogenous group as acceptor catalytic activity transferase activity, transferring phosphorus-containing groups	response to nutrient levels carbon utilization regulation of response to nutrient levels regulation of biological process response to stimulus regulation of response to stimulus regulation of carbon utilization biological regulation import into cell phosphoenolpyruvate-dependent sugar phosphotransferase system transport import across plasma membrane carbohydrate import across plasma membrane carbohydrate transport response to nutrient levels carbon utilization regulation of response to nutrient levels regulation of biological process response to stimulus regulation of response to stimulus regulation of carbon utilization biological regulation import into cell phosphoenolpyruvate-dependent sugar phosphotransferase system transport import across plasma membrane carbohydrate import across plasma membrane carbohydrate transport establishment of localization transmembrane transport localization cellular process carbohydrate transmembrane transport monosaccharide metabolic process regulation of cellular process catabolic process energy derivation by oxidation of organic compounds positive regulation of biological process carbohydrate catabolic process regulation of generation of precursor metabolites and energy regulation of polysaccharide metabolic process macromolecule catabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of glycogen metabolic process glucan metabolic process polysaccharide metabolic process regulation of small molecule metabolic process regulation of glycogen catabolic process glycogen catabolic process small molecule metabolic process positive regulation of macromolecule metabolic process positive regulation of glycogen catabolic process regulation of carbohydrate metabolic process regulation of glucose metabolic process positive regulation of cellular process carbohydrate metabolic process regulation of carbohydrate catabolic process glucan catabolic process glycogen metabolic process primary metabolic process hexose metabolic process regulation of catabolic process generation of precursor metabolites and energy regulation of macromolecule metabolic process positive regulation of catabolic process positive regulation of glucose metabolic process polysaccharide catabolic process metabolic process energy reserve metabolic process positive regulation of carbohydrate metabolic process macromolecule metabolic process positive regulation of small molecule metabolic process regulation of glycogen metabolic process regulation of metabolic process glucose metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
A, B	Autoinducer-2 kinase	kinase activity transferase activity catalytic activity transferase activity, transferring phosphorus-containing groups autoinducer-2 kinase activity phosphotransferase activity, alcohol group as acceptor	carbohydrate metabolic process primary metabolic process metabolic process cellular process cell aggregation biofilm formation biological process involved in intraspecies interaction between organisms single-species biofilm formation aggregation of unicellular organisms regulation of biological process response to stimulus signaling quorum sensing biological regulation carbohydrate metabolic process primary metabolic process metabolic process cellular process cell aggregation biofilm formation biological process involved in intraspecies interaction between organisms single-species biofilm formation aggregation of unicellular organisms regulation of biological process response to stimulus signaling quorum sensing biological regulation cell-cell signaling detection of cell density detection of biotic stimulus response to biotic stimulus cell communication detection of stimulus	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR002114	Phosphotransferase system, HPr serine phosphorylation site	PTM
C, D	IPR001020	Phosphotransferase system, HPr histidine phosphorylation site	PTM
C, D	IPR000032	Phosphocarrier protein HPr-like	Domain
C, D	IPR050399	Phosphocarrier protein HPr	Family
C, D	IPR035895	HPr-like superfamily	Homologous Superfamily
A, B	IPR033676	Autoinducer-2 kinase	Family
A, B	IPR018485	Carbohydrate kinase FGGY, C-terminal	Domain
A, B	IPR043129	ATPase, nucleotide binding domain	Homologous Superfamily
A, B	IPR000577	Carbohydrate kinase, FGGY	Family
A, B	IPR018484	Carbohydrate kinase FGGY, N-terminal	Domain
A, B	IPR050406	FGGY Carbohydrate Kinase	Family

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.