PLAZA 4.0 Monocots gene overview : AT4G16250

Gene: AT4G16250 (Arabidopsis thaliana)

Overview

Gene Identifier: AT4G16250
Transcript Identifier: AT4G16250.1
Gene Type: Coding gene
Location: Chr4 : 9195602-9199486 : negative

Family

Gene family: HOM04M001168
(122 genes in 27 species)
specific family
Subfamily: ORTHO04M001284
(103 genes in 27 species)
specific family

Descriptions

Description: phytochrome D

Curated Summary: Encodes a phytochrome photoreceptor with a function similar to that of phyB that absorbs the red/far-red part of the light spectrum and is involved in light responses. It cannot compensate for phyB loss in Arabidopsis but can substitute for tobacco phyB in vivo.

Identifiers

Type	Value
symbol	PHYD
tid	AT4G16250.1
UniProt	P42497

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Biological Process

GO term	Evidence(s)	Provider	Description	Source
GO:0006355	IEA, ISS,	UniProt	regulation of transcription, DNA-templated	1 2
GO:0007165	IEA	InterPro	signal transduction
GO:0009584	IEA	UniProt	detection of visible light	1
GO:0018298	IEA	UniProt	protein-chromophore linkage	1
GO:0009585	IEA	UniProt	red, far-red light phototransduction	1
GO:0017006	IEA	UniProt	protein-tetrapyrrole linkage	1
GO:0006351	IEA	UniProt	transcription, DNA-templated	1
GO:0010017	IGI	Gene Ontology	red or far-red light signaling pathway	1
GO:0010201	IEA	PLAZA Tree-based Orthology	response to continuous far red light stimulus by the high-irradiance response system	AT1G09570
GO:0010202	IEA	PLAZA Integrative Orthology	response to low fluence red light stimulus	AT2G18790
GO:2000028	IEA	PLAZA Integrative Orthology	regulation of photoperiodism, flowering	AT2G18790
GO:0031347	IEA	PLAZA Integrative Orthology	regulation of defense response	AT2G18790
GO:0010244	IEA	PLAZA Integrative Orthology	response to low fluence blue light stimulus by blue low-fluence system	AT2G18790
GO:0010029	IEA	PLAZA Integrative Orthology	regulation of seed germination	AT2G18790
GO:0015979	IEA	PLAZA Integrative Orthology	photosynthesis	AT2G18790
GO:0010203	IEA	PLAZA Tree-based Orthology	response to very low fluence red light stimulus	AT1G09570
GO:0017012	IEA	PLAZA Integrative Orthology	protein-phytochromobilin linkage	AT2G18790
GO:0010148	IEA	PLAZA Integrative Orthology	transpiration	AT2G18790
GO:0009638	IEA	PLAZA Integrative Orthology	phototropism	AT2G18790
GO:0009867	IEA	PLAZA Integrative Orthology	jasmonic acid mediated signaling pathway	AT2G18790
GO:0009687	IEA	PLAZA Integrative Orthology	abscisic acid metabolic process	AT2G18790
GO:0000724	IEA	PLAZA Tree-based Orthology	double-strand break repair via homologous recombination	LOC_Os03g54084
GO:0009266	IEA	PLAZA Integrative Orthology	response to temperature stimulus	AT2G18790
GO:0009640	IEA	PLAZA Integrative Orthology	photomorphogenesis	AT2G18790
GO:0010374	IEA	PLAZA Integrative Orthology	stomatal complex development	AT2G18790
GO:0017148	IEA	PLAZA Tree-based Orthology	negative regulation of translation	AT1G09570
GO:0010617	IEA	PLAZA Integrative Orthology	circadian regulation of calcium ion oscillation	AT2G18790
GO:0010218	IEA	PLAZA Integrative Orthology	response to far red light	AT2G18790
GO:0046685	IEA	PLAZA Tree-based Orthology	response to arsenic-containing substance	AT1G09570
GO:0045892	IEA	PLAZA Integrative Orthology	negative regulation of transcription, DNA-templated	AT2G18790
GO:0009649	IEA	PLAZA Integrative Orthology	entrainment of circadian clock	AT2G18790
GO:0009409	IEA	PLAZA Integrative Orthology	response to cold	AT2G18790
GO:0006325	IEA	PLAZA Integrative Orthology	chromatin organization	AT2G18790
GO:0009630	IEA	PLAZA Integrative Orthology	gravitropism	AT2G18790
GO:0010161	IEA	PLAZA Integrative Orthology	red light signaling pathway	AT2G18790
GO:0007131	IEA	PLAZA Tree-based Orthology	reciprocal meiotic recombination	LOC_Os03g54084

Molecular Function

GO term	Evidence(s)	Provider	Description	Source
GO:0005515	IPI, IEA	Gene Ontology	protein binding	1
GO:0000155	IEA	UniProt	phosphorelay sensor kinase activity	1
GO:0009881	IEA	UniProt	photoreceptor activity	1
GO:0042803	IEA	UniProt	protein homodimerization activity	1
GO:0004871	ISS	Gene Ontology	signal transducer activity	1
GO:0008020	ISS	Gene Ontology	G-protein coupled photoreceptor activity	1
GO:0042802	IPI	UniProt	identical protein binding	1
GO:0009883	IGI	Gene Ontology	red or far-red light photoreceptor activity	1
GO:0004672	IEA	PLAZA Tree-based Orthology	protein kinase activity	AT1G09570
GO:0003729	IEA	PLAZA Tree-based Orthology	mRNA binding	AT1G09570
GO:1990841	IEA	PLAZA Integrative Orthology	promoter-specific chromatin binding	AT2G18790
GO:0031517	IEA	PLAZA Integrative Orthology	red light photoreceptor activity	AT2G18790
GO:0031516	IEA	PLAZA Integrative Orthology	far-red light photoreceptor activity	AT2G18790
GO:0043565	IEA	PLAZA Integrative Orthology	sequence-specific DNA binding	AT2G18790

Cellular Component

GO term	Evidence(s)	Provider	Description	Source
GO:0005634	IDA	UniProt	nucleus	1
GO:0005622	IEA	UniProt	intracellular
GO:0005737	IEA	PLAZA Tree-based Orthology	cytoplasm	AT1G09570
GO:0005829	IEA	PLAZA Integrative Orthology	cytosol	AT2G18790
GO:0016604	IEA	PLAZA Integrative Orthology	nuclear body	AT2G18790

Color Legend

Experimental Evidence

Electronic Evidence

Computational Reviewed Evidence

InterPro	Description
IPR000014	PAS domain
IPR029016	GAF domain-like
IPR003594	Histidine kinase-like ATPase, C-terminal domain
IPR013767	PAS fold
IPR003018	GAF domain
IPR003661	Signal transduction histidine kinase, dimerisation/phosphoacceptor domain
IPR013654	PAS fold-2
IPR013515	Phytochrome, central region
IPR012129	Phytochrome A/B/C/D/E
IPR001294	Phytochrome
IPR013516	Phytochrome chromophore binding site
IPR016132	Phytochrome chromophore attachment domain
IPR005467	Histidine kinase domain

Mapman id	Description
26.1.1.1	.External stimuli response.light.red/far red light.phytochrome photoreceptor (PHY)
26.4.1.2	.External stimuli response.temperature.sensing and signalling.temperature sensor protein (PHY-B)

No SignalP domains detected for this gene.