GlnB-like superfamily

SCOP classification

• Root: SCOP hierarchy in SUPERFAMILY [ 0] (11)
• Class: Alpha and beta proteins (a+b) [ 53931] (376)
• Fold: Ferredoxin-like [ 54861] (59)
• Superfamily: GlnB-like [ 54913] (5)
• Families:
  • Prokaryotic signal transducing protein [ 54914] (3)
  • Divalent ion tolerance proteins CutA (CutA1) [ 75434] (3)
  • DUF190/COG1993 [ 89934]
  • ATP phosphoribosyltransferase (ATP-PRTase, HisG), regulatory C-terminal domain [ 88851]
  • RPA1041-like [ 160310]

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Superfamily statistics

	Genomes (2,679)	Uniprot 2018_03 genome	PDB chains (SCOP 1.75)
Domains	7,542	55,454	24
Proteins	7,379	54,376	24

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Functional annotation

• General category: Regulation
• Detailed category: Signal transduction

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Enzyme Commission (EC)

Highlighted in gray are those with FDR_all>0.001

	EC term	FDR (all)	IC level	SDEO level	Annotation (direct or inherited)
Enzyme Commission (EC)	ATP phosphoribosyltransferase	0	2.259	--	DIRECT
Enzyme Commission (EC)	Transferases	0	0	--	DIRECT
Enzyme Commission (EC)	Pentosyltransferases	0	1.238	--	DIRECT
Enzyme Commission (EC)	Glycosyltransferases	0	0.9165	Moderately Informative	DIRECT

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Arabidopsis Plant Ontology (AP)

Highlighted in gray are those with FDR_all>0.001

	AP term	FDR (all)	IC level	SDAP level	Annotation (direct or inherited)
Plant ANatomical entity (PAN)	leaf lamina base	0	0.7094	--	DIRECT
Plant ANatomical entity (PAN)	petal	0	0.594	--	DIRECT
Plant ANatomical entity (PAN)	calyx	0	0.5715	--	DIRECT
Plant ANatomical entity (PAN)	pedicel	0	0.6366	--	DIRECT
Plant ANatomical entity (PAN)	inflorescence axis	0	0.6366	--	DIRECT
Plant ANatomical entity (PAN)	portion of plant tissue	0	0.1892	--	DIRECT
Plant ANatomical entity (PAN)	collective plant structure	0	0.01577	--	DIRECT
Plant ANatomical entity (PAN)	plant cell	0	0.1489	--	DIRECT
Plant ANatomical entity (PAN)	epidermis	0	0.2464	--	DIRECT
Plant ANatomical entity (PAN)	androecium	0	0.594	--	DIRECT
Plant ANatomical entity (PAN)	reproductive shoot system	0	0.4141	--	DIRECT
Plant ANatomical entity (PAN)	vascular leaf	0	0.5246	--	DIRECT
Plant ANatomical entity (PAN)	branch	0	0.6366	--	DIRECT
Plant ANatomical entity (PAN)	sepal	0	0.5715	--	DIRECT
Plant ANatomical entity (PAN)	stomatal complex	0	0.2774	--	DIRECT
Plant ANatomical entity (PAN)	shoot apex	0	0.5633	--	DIRECT
Plant ANatomical entity (PAN)	collective leaf structure	0	0.55	--	DIRECT
Plant ANatomical entity (PAN)	carpel	0	0.6087	--	DIRECT
Plant ANatomical entity (PAN)	leaf apex	0	0.7094	--	DIRECT
Plant ANatomical entity (PAN)	plant axis	0	0.3881	--	DIRECT
Plant ANatomical entity (PAN)	multi-tissue plant structure	0	0.2691	--	DIRECT
Plant ANatomical entity (PAN)	root	0	0.5579	--	DIRECT
Plant ANatomical entity (PAN)	plant organ	0	0.2816	--	DIRECT
Plant ANatomical entity (PAN)	epidermal cell	0	0.2569	--	DIRECT
Plant ANatomical entity (PAN)	stem internode	0	0.6495	--	DIRECT
Plant ANatomical entity (PAN)	inflorescence branch	0	0.6366	--	DIRECT
Plant ANatomical entity (PAN)	phyllome apex	0	0.7019	--	DIRECT
Plant ANatomical entity (PAN)	stamen	0	0.6028	--	DIRECT
Plant ANatomical entity (PAN)	petiole	0	0.7287	--	DIRECT
Plant ANatomical entity (PAN)	stalk	0	0.7019	--	DIRECT
Plant ANatomical entity (PAN)	plant embryo	0	0.5969	--	DIRECT
Plant ANatomical entity (PAN)	pollen sac	0	0.7531	--	DIRECT
Plant ANatomical entity (PAN)	leaf lamina	0	0.7057	--	DIRECT
Plant ANatomical entity (PAN)	gynoecium	0	0.6058	--	DIRECT
Plant ANatomical entity (PAN)	shoot system	0	0.05747	--	DIRECT
Plant ANatomical entity (PAN)	microgametophyte	0	0.7531	--	DIRECT
Plant ANatomical entity (PAN)	shoot epidermal cell	0	0.276	--	DIRECT
Plant ANatomical entity (PAN)	sporophyll	0	0.4713	--	DIRECT
Plant ANatomical entity (PAN)	lamina	0	0.7057	--	DIRECT
Plant ANatomical entity (PAN)	microsporangium	0	0.7448	--	DIRECT
Plant ANatomical entity (PAN)	cauline leaf	0	0.7019	--	DIRECT
Plant ANatomical entity (PAN)	shoot internode	0	0.6463	--	DIRECT
Plant ANatomical entity (PAN)	phyllome	0	0.3809	--	DIRECT
Plant ANatomical entity (PAN)	corolla	0	0.594	--	DIRECT
Plant ANatomical entity (PAN)	shoot epidermis	0	0.2691	--	DIRECT
Plant ANatomical entity (PAN)	stem	0	0.577	--	DIRECT
Plant ANatomical entity (PAN)	perianth	0	0.5448	--	DIRECT
Plant ANatomical entity (PAN)	cardinal organ part	0	0.51	--	DIRECT
Plant ANatomical entity (PAN)	collective plant organ structure	1	0.04502	--	INHERITED FROM: inflorescence axis || calyx || flower || sporophyll || inflorescence meristem || root system || inflorescence || root || perianth || stem || leaf || phyllome || shoot internode || sepal || vascular leaf || gynoecium || petiole || petal || reproductive shoot system || shoot apex || leaf apex || carpel || collective phyllome structure || guard cell || megasporophyll || cauline leaf || pollen || microsporophyll || pollen sac || leaf lamina || shoot epidermal cell || corolla || pedicel || androecium || stomatal complex || phyllome apex || cotyledon || stamen || stem internode || inflorescence branch || shoot axis || shoot system || leaf lamina base || collective leaf structure || branch || shoot epidermis
Plant ANatomical entity (PAN)	phyllome lamina	1	0.7057	--	INHERITED FROM: leaf lamina base || leaf lamina
Plant ANatomical entity (PAN)	plant structure	1	0	--	INHERITED FROM: perianth || root || sporophyll || calyx || inflorescence axis || flower || lamina || collective plant structure || plant embryo || leaf || shoot internode || phyllome || pollen sac || cardinal organ part || multi-tissue plant structure || microsporophyll || guard cell || megasporophyll || cauline leaf || reproductive shoot system || shoot apex || leaf apex || leaf lamina base || branch || collective leaf structure || stem internode || inflorescence branch || shoot system || sporangium || portion of plant tissue || stomatal complex || plant organ || portion of meristem tissue || stem || whole plant || inflorescence meristem || epidermis || root system || inflorescence || cardinal part of multi-tissue plant structure || petiole || stalk || gynoecium || vascular leaf || sepal || microsporangium || epidermal cell || leaf lamina || shoot epidermal cell || corolla || pollen || plant axis || collective phyllome structure || petal || plant cell || carpel || seed || shoot epidermis || phyllome apex || cotyledon || stamen || shoot axis || microgametophyte || pedicel || androecium
Plant ANatomical entity (PAN)	organ lamina	1	0.7057	--	INHERITED FROM: leaf lamina base || leaf lamina
Plant ANatomical entity (PAN)	cardinal part of multi-tissue plant structure	0	0.5029	Least Informative	DIRECT
Plant ANatomical entity (PAN)	root system	0	0.5346	Least Informative	DIRECT
Plant ANatomical entity (PAN)	inflorescence	0	0.5969	Least Informative	DIRECT
Plant ANatomical entity (PAN)	microsporophyll	0	0.5029	Least Informative	DIRECT
Plant ANatomical entity (PAN)	flower	0	0.4337	Least Informative	DIRECT
Plant ANatomical entity (PAN)	guard cell	0	0.2774	Least Informative	DIRECT
Plant ANatomical entity (PAN)	seed	0	0.6087	Least Informative	DIRECT
Plant ANatomical entity (PAN)	portion of meristem tissue	0	0.6838	Least Informative	DIRECT
Plant ANatomical entity (PAN)	collective phyllome structure	0	0.4648	Least Informative	DIRECT
Plant ANatomical entity (PAN)	megasporophyll	0	0.6087	Least Informative	DIRECT
Plant ANatomical entity (PAN)	leaf	0	0.5053	Least Informative	DIRECT
Plant ANatomical entity (PAN)	shoot axis	0	0.4735	Least Informative	DIRECT
Plant ANatomical entity (PAN)	sporangium	0	0.7407	Least Informative	DIRECT
Plant ANatomical entity (PAN)	whole plant	0	0.4218	Least Informative	DIRECT
Plant ANatomical entity (PAN)	pollen	0	0.7531	Moderately Informative	DIRECT
Plant ANatomical entity (PAN)	inflorescence meristem	0	0.7789	Moderately Informative	DIRECT
Plant ANatomical entity (PAN)	cotyledon	0	0.7615	Moderately Informative	DIRECT
Plant structure DEvelopment stage (PDE)	corolla development stage	0	0.1981	--	DIRECT
Plant structure DEvelopment stage (PDE)	flowering stage	0	0.2162	--	DIRECT
Plant structure DEvelopment stage (PDE)	collective plant organ structure development stage	0	0.03771	--	DIRECT
Plant structure DEvelopment stage (PDE)	floral organ formation stage	0	0.0937	--	DIRECT
Plant structure DEvelopment stage (PDE)	floral organ differentiation stage	0	0.0937	--	DIRECT
Plant structure DEvelopment stage (PDE)	reproductive shoot system development stage	0	0.05008	--	DIRECT
Plant structure DEvelopment stage (PDE)	collective phyllome structure development stage	0	0.0937	--	DIRECT
Plant structure DEvelopment stage (PDE)	phyllome development stage	0	0.4754	--	DIRECT
Plant structure DEvelopment stage (PDE)	sporophyte vegetative stage	0	0.2036	--	DIRECT
Plant structure DEvelopment stage (PDE)	whole plant development stage	0	0.1968	--	DIRECT
Plant structure DEvelopment stage (PDE)	1 main shoot growth stage	0	0.3937	--	DIRECT
Plant structure DEvelopment stage (PDE)	leaf production stage	0	0.3937	--	DIRECT
Plant structure DEvelopment stage (PDE)	plant embryo stage	0	0.2833	--	DIRECT
Plant structure DEvelopment stage (PDE)	plant organ development stage	0	0.08108	--	DIRECT
Plant structure DEvelopment stage (PDE)	shoot system development stage	1	0.04053	--	INHERITED FROM: phyllome development stage || reproductive shoot system development stage || floral organ formation stage || floral organ differentiation stage || flowering stage || corolla development stage || plant organ development stage || 4 leaf senescence stage
Plant structure DEvelopment stage (PDE)	leaf development stage	1	0.4754	--	INHERITED FROM: 4 leaf senescence stage
Plant structure DEvelopment stage (PDE)	sporophyte development stage	1	0.2022	--	INHERITED FROM: LP.08 eight leaves visible stage || LP.12 twelve leaves visible stage || E expanded cotyledon stage || LP.10 ten leaves visible stage || LP.06 six leaves visible stage || sporophyte vegetative stage || C globular stage || leaf production stage || 1 main shoot growth stage || D bilateral stage || F mature embryo stage || LP.04 four leaves visible stage || plant embryo stage || LP.02 two leaves visible stage
Plant structure DEvelopment stage (PDE)	life of whole plant stage	1	0.2022	--	INHERITED FROM: sporophyte vegetative stage || C globular stage || LP.10 ten leaves visible stage || E expanded cotyledon stage || LP.12 twelve leaves visible stage || F mature embryo stage || LP.04 four leaves visible stage || D bilateral stage || LP.06 six leaves visible stage || LP.08 eight leaves visible stage || LP.02 two leaves visible stage || plant embryo stage || leaf production stage || 1 main shoot growth stage
Plant structure DEvelopment stage (PDE)	flower development stage	1	0.07083	--	INHERITED FROM: corolla development stage || flowering stage || floral organ differentiation stage || floral organ formation stage
Plant structure DEvelopment stage (PDE)	LP.08 eight leaves visible stage	0	0.586	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	LP.12 twelve leaves visible stage	0	0.5666	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	E expanded cotyledon stage	0	0.353	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	LP.10 ten leaves visible stage	0	0.513	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	LP.06 six leaves visible stage	0	0.5243	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	C globular stage	0	0.3937	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	4 leaf senescence stage	0	0.478	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	D bilateral stage	0	0.3729	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	LP.04 four leaves visible stage	0	0.4338	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	F mature embryo stage	0	0.4088	Least Informative	DIRECT
Plant structure DEvelopment stage (PDE)	LP.02 two leaves visible stage	0	0.5603	Least Informative	DIRECT

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Enzyme Commission (EC)

Highlighted in gray are those with FDR_all>0.001

	EC term	FDR (all)	IC level	SDEC level	Annotation (direct or inherited)
Enzyme Commission (EC)	Transferases	0	0.3035	--	DIRECT
Enzyme Commission (EC)	ATP phosphoribosyltransferase	0	2.651	--	DIRECT
Enzyme Commission (EC)	Glycosyltransferases	0	1.204	Moderately Informative	DIRECT
Enzyme Commission (EC)	Pentosyltransferases	0	1.447	Informative	DIRECT

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InterPro annotation

• Cross references: IPR011322 SSF54913 Protein matches
• Abstract:

  This entry represents a structural domain found in the nitrogen regulatory protein PII, in ATP phosphribosyltransferases (C-terminal domain), in the divalent ion tolerance protein CutA1, and in some bacterial hypothetical proteins. This domain consists of a ferredoxin-like alpha/beta sandwich, which forms trimeric structures with orthogonally packed beta-sheets around a three-fold axis.

  PII is a tetrameric protein encoded by glnB that functions as a component of the adenylation cascade involved in the regulation of GS activity [1702507]. PII helps regulate the level of glutamine synthetase in response to nitrogen source availability. In nitrogen-limiting conditions, PII is uridylylated to form PII-UMP, which allows the deadenylation of glutamine synthetase, thus activating the enzyme. Conversely, in nitrogen excess, PI-UMP is deuridylated to PII, promoting the adenylation and deactivation of glutamine synthetase [16860774].

  ATP phosphoribosyltransferase is the first enzyme of the histidine pathway. It is allosterically regulated, controlling the flow of intermediates through the pathway. The C-terminal domain is the regulatory region of the protein, which binds the allosteric inhibitor histidine [14741209].

  CutA1 functions in divalent ion tolerance in bacteria, plants and animals [12949080, 7623666]. Divalent metal ions play key roles in all living organisms, serving as cofactors for many proteins involved in a variety of electron-transfer activities. In Escherichia coli it is thought to be involved in copper ion tolerance, excessive copper ions being toxic [17077491].

InterPro database

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