2XG8 | pdb_00002xg8

Structural basis of gene regulation by protein PII: The crystal complex of PII and PipX from Synechococcus elongatus PCC 7942

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E	SCOP2B Superfamily	PipX-like	8092203	3002570	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	PipX-like	8092203	3002570	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	PipX-like	8092203	3002570	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	GlnB-like	8040085	3001165	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	GlnB-like	8040085	3001165	SCOP2B (2022-06-29)
C	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)
E	DUF3539	e2xg8E1	A: a+b two layers	X: PipX (From Topology)	H: PipX (From Topology)	T: PipX	F: DUF3539	ECOD (1.6)
F	DUF3539	e2xg8F1	A: a+b two layers	X: PipX (From Topology)	H: PipX (From Topology)	T: PipX	F: DUF3539	ECOD (1.6)
D	DUF3539	e2xg8D1	A: a+b two layers	X: PipX (From Topology)	H: PipX (From Topology)	T: PipX	F: DUF3539	ECOD (1.6)
A	P-II	e2xg8A1	A: a+b two layers	X: Alpha-beta plaits	H: GlnB-like (From Topology)	T: GlnB-like	F: P-II	ECOD (1.6)
B	P-II	e2xg8B1	A: a+b two layers	X: Alpha-beta plaits	H: GlnB-like (From Topology)	T: GlnB-like	F: P-II	ECOD (1.6)
C	P-II	e2xg8C1	A: a+b two layers	X: Alpha-beta plaits	H: GlnB-like (From Topology)	T: GlnB-like	F: P-II	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E	2.30.30.660	Mainly Beta	Roll	SH3 type barrels.	Protein of unknown function (DUF3539)	CATH (4.3.0)
E	6.10.250.870	Special	Helix non-globular	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
D	2.30.30.660	Mainly Beta	Roll	SH3 type barrels.	Protein of unknown function (DUF3539)	CATH (4.3.0)
D	6.10.250.870	Special	Helix non-globular	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
A	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
B	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
C	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
D, E, F	PF12058	PII-interacting protein X (PipX)	PII-interacting protein X	-	Family
A, B, C	PF00543	Nitrogen regulatory protein P-II (P-II)	Nitrogen regulatory protein P-II	P-II modulates the activity of glutamine synthetase. It is a tetrameric protein encoded by the glnB gene, a component of the adenylation cascade involved in the regulation of GS activity [1,2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, E, F	PIPX	-	-	-
A, B, C	NITROGEN REGULATORY PROTEIN P-II	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 enzyme regulator activity molecular function regulator activity 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	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D, E, F	IPR021926	PII-interacting protein X, cyanobacteria	Family
A, B, C	IPR015867	Nitrogen regulatory protein PII/ATP phosphoribosyltransferase, C-terminal	Homologous Superfamily
A, B, C	IPR011322	Nitrogen regulatory PII-like, alpha/beta	Homologous Superfamily
A, B, C	IPR002187	Nitrogen regulatory protein PII	Family
A, B, C	IPR002332	Nitrogen regulatory protein P-II, urydylation site	PTM
A, B, C	IPR017918	Nitrogen regulatory protein PII, conserved site	Conserved Site

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.