2V5H

Controlling the storage of nitrogen as arginine: the complex of PII and acetylglutamate kinase from Synechococcus elongatus PCC 7942

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	d2v5ha_	Alpha and beta proteins (a/b)	Carbamate kinase-like	Carbamate kinase-like	automated matches	automated matches	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
B	d2v5hb_	Alpha and beta proteins (a/b)	Carbamate kinase-like	Carbamate kinase-like	automated matches	automated matches	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
C	d2v5hc_	Alpha and beta proteins (a/b)	Carbamate kinase-like	Carbamate kinase-like	automated matches	automated matches	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
D	d2v5hd_	Alpha and beta proteins (a/b)	Carbamate kinase-like	Carbamate kinase-like	automated matches	automated matches	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
E	d2v5he_	Alpha and beta proteins (a/b)	Carbamate kinase-like	Carbamate kinase-like	automated matches	automated matches	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
F	d2v5hf_	Alpha and beta proteins (a/b)	Carbamate kinase-like	Carbamate kinase-like	automated matches	automated matches	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
G	d2v5hg_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Prokaryotic signal transducing protein	PII (product of glnB)	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
H	d2v5hh_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Prokaryotic signal transducing protein	PII (product of glnB)	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
I	d2v5hi_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Prokaryotic signal transducing protein	PII (product of glnB)	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
J	d2v5hj_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Prokaryotic signal transducing protein	PII (product of glnB)	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
K	d2v5hk_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Prokaryotic signal transducing protein	PII (product of glnB)	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
L	d2v5hl_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Prokaryotic signal transducing protein	PII (product of glnB)	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Carbamate kinase-like	8084034	3001310	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Carbamate kinase-like	8084034	3001310	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Carbamate kinase-like	8084034	3001310	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Carbamate kinase-like	8084034	3001310	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Carbamate kinase-like	8084034	3001310	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Carbamate kinase-like	8084034	3001310	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	GlnB-like	8040085	3001165	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	GlnB-like	8040085	3001165	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	GlnB-like	8040085	3001165	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	GlnB-like	8040085	3001165	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	GlnB-like	8040085	3001165	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	GlnB-like	8040085	3001165	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	PF00696	e2v5hA1	A: a/b three-layered sandwiches	X: Carbamate kinase-like (From Topology)	H: Carbamate kinase-like (From Topology)	T: Carbamate kinase-like	F: PF00696	ECOD (1.6)
B	PF00696	e2v5hB1	A: a/b three-layered sandwiches	X: Carbamate kinase-like (From Topology)	H: Carbamate kinase-like (From Topology)	T: Carbamate kinase-like	F: PF00696	ECOD (1.6)
C	PF00696	e2v5hC1	A: a/b three-layered sandwiches	X: Carbamate kinase-like (From Topology)	H: Carbamate kinase-like (From Topology)	T: Carbamate kinase-like	F: PF00696	ECOD (1.6)
D	PF00696	e2v5hD1	A: a/b three-layered sandwiches	X: Carbamate kinase-like (From Topology)	H: Carbamate kinase-like (From Topology)	T: Carbamate kinase-like	F: PF00696	ECOD (1.6)
E	PF00696	e2v5hE1	A: a/b three-layered sandwiches	X: Carbamate kinase-like (From Topology)	H: Carbamate kinase-like (From Topology)	T: Carbamate kinase-like	F: PF00696	ECOD (1.6)
F	PF00696	e2v5hF1	A: a/b three-layered sandwiches	X: Carbamate kinase-like (From Topology)	H: Carbamate kinase-like (From Topology)	T: Carbamate kinase-like	F: PF00696	ECOD (1.6)
G	PF00543	e2v5hG1	A: a+b two layers	X: Alpha-beta plaits	H: GlnB-like (From Topology)	T: GlnB-like	F: PF00543	ECOD (1.6)
H	PF00543	e2v5hH1	A: a+b two layers	X: Alpha-beta plaits	H: GlnB-like (From Topology)	T: GlnB-like	F: PF00543	ECOD (1.6)
I	PF00543	e2v5hI1	A: a+b two layers	X: Alpha-beta plaits	H: GlnB-like (From Topology)	T: GlnB-like	F: PF00543	ECOD (1.6)
J	PF00543	e2v5hJ1	A: a+b two layers	X: Alpha-beta plaits	H: GlnB-like (From Topology)	T: GlnB-like	F: PF00543	ECOD (1.6)
K	PF00543	e2v5hK1	A: a+b two layers	X: Alpha-beta plaits	H: GlnB-like (From Topology)	T: GlnB-like	F: PF00543	ECOD (1.6)
L	PF00543	e2v5hL1	A: a+b two layers	X: Alpha-beta plaits	H: GlnB-like (From Topology)	T: GlnB-like	F: PF00543	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.1160.10	Alpha Beta	3-Layer(aba) Sandwich	Carbamate kinase	Acetylglutamate kinase-like	CATH (4.3.0)
B	3.40.1160.10	Alpha Beta	3-Layer(aba) Sandwich	Carbamate kinase	Acetylglutamate kinase-like	CATH (4.3.0)
C	3.40.1160.10	Alpha Beta	3-Layer(aba) Sandwich	Carbamate kinase	Acetylglutamate kinase-like	CATH (4.3.0)
D	3.40.1160.10	Alpha Beta	3-Layer(aba) Sandwich	Carbamate kinase	Acetylglutamate kinase-like	CATH (4.3.0)
E	3.40.1160.10	Alpha Beta	3-Layer(aba) Sandwich	Carbamate kinase	Acetylglutamate kinase-like	CATH (4.3.0)
F	3.40.1160.10	Alpha Beta	3-Layer(aba) Sandwich	Carbamate kinase	Acetylglutamate kinase-like	CATH (4.3.0)
G	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
H	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
I	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
J	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
K	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
L	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		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	PF00696	Amino acid kinase family (AA_kinase)	Amino acid kinase family	-	Family
G, H, I, J, K G, H, I, J, K, L	PF00543	Nitrogen regulatory protein P-II (P-II)	Nitrogen regulatory protein P-II	P-II modulates the activity of glutamine synthetase.	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	ACETYLGLUTAMATE KINASE	kinase activity acetylglutamate kinase activity phosphotransferase activity, carboxyl group as acceptor transferase activity catalytic activity transferase activity, transferring phosphorus-containing groups binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding kinase activity acetylglutamate kinase activity phosphotransferase activity, carboxyl group as acceptor transferase activity catalytic activity transferase activity, transferring phosphorus-containing groups binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding identical protein binding protein binding	phosphorylation cellular metabolic process phosphate-containing compound metabolic process metabolic process cellular process phosphorus metabolic process ornithine metabolic process oxoacid metabolic process glutamine family amino acid biosynthetic process cellular biosynthetic process organonitrogen compound biosynthetic process amino acid metabolic process organic acid metabolic process organic acid biosynthetic process phosphorylation cellular metabolic process phosphate-containing compound metabolic process metabolic process cellular process phosphorus metabolic process ornithine metabolic process oxoacid metabolic process glutamine family amino acid biosynthetic process cellular biosynthetic process organonitrogen compound biosynthetic process amino acid metabolic process organic acid metabolic process organic acid biosynthetic process arginine biosynthetic process alpha-amino acid metabolic process carboxylic acid biosynthetic process glutamine family amino acid metabolic process arginine metabolic process non-proteinogenic amino acid metabolic process organic substance metabolic process organic substance biosynthetic process small molecule metabolic process organonitrogen compound metabolic process small molecule biosynthetic process carboxylic acid metabolic process primary metabolic process L-amino acid biosynthetic process L-amino acid metabolic process arginine biosynthetic process via ornithine proteinogenic amino acid metabolic process amino acid biosynthetic process biosynthetic process proteinogenic amino acid biosynthetic process alpha-amino acid biosynthetic process	intracellular anatomical structure cytoplasm cellular anatomical entity
G, H, I, J, K G, H, I, J, K, L	NITROGEN REGULATORY PROTEIN P-II	enzyme regulator activity molecular function regulator activity binding nucleoside phosphate binding organic cyclic compound binding nucleotide binding heterocyclic compound binding small molecule binding identical protein binding protein binding	response to nutrient levels regulation of response to nutrient levels regulation of biological process response to stimulus homeostatic process nitrogen utilization biological regulation regulation of nitrogen utilization cellular homeostasis chemical homeostasis regulation of response to stimulus intracellular nitrogen homeostasis intracellular chemical homeostasis	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR004662	Acetylglutamate kinase family	Family
A, B, C, D, E A, B, C, D, E, F	IPR001048	Aspartate/glutamate/uridylate kinase	Domain
A, B, C, D, E A, B, C, D, E, F	IPR037528	Acetylglutamate kinase ArgB	Family
A, B, C, D, E A, B, C, D, E, F	IPR041727	N-Acetyl-L-glutamate kinase, cyclic	Family
A, B, C, D, E A, B, C, D, E, F	IPR036393	Acetylglutamate kinase-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR001057	Glutamate/acetylglutamate kinase	Family
G, H, I, J, K G, H, I, J, K, L	IPR015867	Nitrogen regulatory protein PII/ATP phosphoribosyltransferase, C-terminal	Homologous Superfamily
G, H, I, J, K G, H, I, J, K, L	IPR011322	Nitrogen regulatory PII-like, alpha/beta	Homologous Superfamily
G, H, I, J, K G, H, I, J, K, L	IPR002187	Nitrogen regulatory protein PII	Family
G, H, I, J, K G, H, I, J, K, L	IPR002332	Nitrogen regulatory protein P-II, urydylation site	PTM
G, H, I, J, K G, H, I, J, K, L	IPR017918	Nitrogen regulatory protein PII, conserved site	Conserved Site

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.