5JGP

Crystal structure of the nitrate/nitrite sensor NarQ fragment bound with iodide ions

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PilJ	e5jgpA2	A: alpha bundles	X: Four-helical up-and-down bundle	H: Histidine kinase associated sensor domains (From Topology)	T: Histidine kinase associated sensor domains	F: PilJ	ECOD (1.6)
A	HAMP	e5jgpA1	A: alpha duplicates or obligate multimers	X: HAMP domain (From Topology)	H: HAMP domain (From Topology)	T: HAMP domain	F: HAMP	ECOD (1.6)
A	UNK_F_TYPE	e5jgpA3	A: extended segments	X: Sensor proteins transmembrane domains	H: NarQ transmembrane domain (From Topology)	T: NarQ transmembrane domain	F: UNK_F_TYPE	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00672	HAMP domain (HAMP)	HAMP domain	-	Domain
A	PF13675	Type IV pili methyl-accepting chemotaxis transducer N-term (PilJ)	Type IV pili methyl-accepting chemotaxis transducer N-term	This domain is found on many type IV pili methyl-accepting chemotaxis transducer proteins [1] where there is also a HAMP signature towards the C-terminus. It is a monomodular four-helix bundle and recognises nitrate and nitrite (Matilla et al. FEMS ...	This domain is found on many type IV pili methyl-accepting chemotaxis transducer proteins [1] where there is also a HAMP signature towards the C-terminus. It is a monomodular four-helix bundle and recognises nitrate and nitrite (Matilla et al. FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Nitrate/nitrite sensor protein NarQ	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 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 molecular sensor activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity phosphotransferase activity, nitrogenous group as acceptor phosphotransferase activity, alcohol group as acceptor protein histidine kinase activity transferase activity, transferring phosphorus-containing groups phosphorelay sensor kinase activity molecular function regulator activity catalytic activity protein binding protein dimerization activity	cellular response to stimulus cellular response to nitrogen compound response to stimulus response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to chemical stimulus response to nitrate response to chemical cellular response to nitrate cellular process cellular response to reactive nitrogen species response to nitrite cellular response to nitrite cellular response to stimulus cellular response to nitrogen compound response to stimulus response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to chemical stimulus response to nitrate response to chemical cellular response to nitrate cellular process cellular response to reactive nitrogen species response to nitrite cellular response to nitrite nitrate assimilation nitrogen cycle metabolic process oxoacid metabolic process cellular metabolic process metabolic process small molecule metabolic process organic acid metabolic process nitrate metabolic process reactive nitrogen species metabolic process regulation of biological process regulation of cellular process signaling biological regulation signal transduction cell communication	cell periphery plasma membrane membrane cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR029095	NarX-like, N-terminal	Domain
A	IPR003660	HAMP domain	Domain
A	IPR011712	Signal transduction histidine kinase, subgroup 3, dimerisation and phosphoacceptor domain	Domain
A	IPR036890	Histidine kinase/HSP90-like ATPase superfamily	Homologous Superfamily
A	IPR003594	Histidine kinase/HSP90-like ATPase domain	Domain
A	IPR005467	Histidine kinase domain	Domain
A	IPR042295	NarX-like, N-terminal domain superfamily	Homologous Superfamily
A	IPR050482	Sensor Histidine Kinase Two-Component System	Family
A	IPR016380	Signal transduction histidine kinase, nitrate/nitrite-sensing	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM				Sensor histidine kinases

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A	MemProtMD	Annotated as membrane protein by MemProtMD

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.