PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

AT5G56860.1

Common Name

GATA21, GNC, MPI10.2

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

GATA

Protein Properties

Length: 398aa MW: 44840 Da PI: 8.9487

Description

GATA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT5G56860.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GATA	60	3.1e-19	232	265	1	34
GATA 1 CsnCgttkTplWRrgpdgnktLCnaCGlyyrkkg 34 Cs C+ttkTplWR+gp+g+k+LCnaCG+++rk + AT5G56860.1 232 CSDCNTTKTPLWRSGPRGPKSLCNACGIRQRKAR 265 *******************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00401	1.1E-20	226	278	IPR000679	Zinc finger, GATA-type
SuperFamily	SSF57716	7.6E-13	226	265	No hit	No description
PROSITE profile	PS50114	12.466	230	262	IPR000679	Zinc finger, GATA-type
Gene3D	G3DSA:3.30.50.10	2.0E-15	230	265	IPR013088	Zinc finger, NHR/GATA-type
CDD	cd00202	1.60E-14	231	263	No hit	No description
PROSITE pattern	PS00344	0	232	257	IPR000679	Zinc finger, GATA-type
Pfam	PF00320	5.9E-17	232	265	IPR000679	Zinc finger, GATA-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0007623	Biological Process	circadian rhythm
GO:0009416	Biological Process	response to light stimulus
GO:0009740	Biological Process	gibberellic acid mediated signaling pathway
GO:0009910	Biological Process	negative regulation of flower development
GO:0010187	Biological Process	negative regulation of seed germination
GO:0010255	Biological Process	glucose mediated signaling pathway
GO:0010380	Biological Process	regulation of chlorophyll biosynthetic process
GO:0030154	Biological Process	cell differentiation
GO:0045944	Biological Process	positive regulation of transcription from RNA polymerase II promoter
GO:0005634	Cellular Component	nucleus
GO:0005667	Cellular Component	transcription factor complex
GO:0000977	Molecular Function	RNA polymerase II regulatory region sequence-specific DNA binding
GO:0001085	Molecular Function	RNA polymerase II transcription factor binding
GO:0001228	Molecular Function	transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding
GO:0003682	Molecular Function	chromatin binding
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000013	anatomy	cauline leaf
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0006340	anatomy	adult vascular leaf
PO:0008019	anatomy	leaf lamina base
PO:0009006	anatomy	shoot system
PO:0009009	anatomy	plant embryo
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0009049	anatomy	inflorescence
PO:0020030	anatomy	cotyledon
PO:0020038	anatomy	petiole
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0001054	developmental stage	vascular leaf senescent stage
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007064	developmental stage	LP.12 twelve leaves visible stage
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007098	developmental stage	LP.02 two leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007123	developmental stage	LP.06 six leaves visible stage
PO:0007131	developmental stage	seedling development stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 398 aa Download sequence Send to blast
MDSNFHYSID LNEDQNHHEQ PFFYPLGSSS SLHHHHHHHH HQVPSNSSSS SSSISSLSSY 60 LPFLINSQED QHVAYNNTYH ADHLHLSQPL KAKMFVANGG SSACDHMVPK KETRLKLTIR 120 KKDHEDQPHP LHQNPTKPDS DSDKWLMSPK MRLIKKTITN NKQLIDQTNN NNHKESDHYP 180 LNHKTNFDED HHEDLNFKNV LTRKTTAATT ENRYNTINEN GYSNNNGVIR VCSDCNTTKT 240 PLWRSGPRGP KSLCNACGIR QRKARRAAMA AAAAAGDQEV AVAPRVQQLP LKKKLQNKKK 300 RSNGGEKYNH SPPMVAKAKK CKIKEEEEKE MEAETVAGDS EISKSTTSSN SSISSNKFCF 360 DDLTIMLSKS SAYQQVFPQD EKEAAVLLMA LSYGMVHG

Sequence ? help Back to Top

Protein Sequence Length: 398 aa Download sequence Send to blast

MDSNFHYSID LNEDQNHHEQ PFFYPLGSSS SLHHHHHHHH HQVPSNSSSS SSSISSLSSY  60
LPFLINSQED QHVAYNNTYH ADHLHLSQPL KAKMFVANGG SSACDHMVPK KETRLKLTIR  120
KKDHEDQPHP LHQNPTKPDS DSDKWLMSPK MRLIKKTITN NKQLIDQTNN NNHKESDHYP  180
LNHKTNFDED HHEDLNFKNV LTRKTTAATT ENRYNTINEN GYSNNNGVIR VCSDCNTTKT  240
PLWRSGPRGP KSLCNACGIR QRKARRAAMA AAAAAGDQEV AVAPRVQQLP LKKKLQNKKK  300
RSNGGEKYNH SPPMVAKAKK CKIKEEEEKE MEAETVAGDS EISKSTTSSN SSISSNKFCF  360
DDLTIMLSKS SAYQQVFPQD EKEAAVLLMA LSYGMVHG

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	30696795	0.0
Genevisible	247980_at	0.0
Expression Atlas	AT5G56860	-
AtGenExpress	AT5G56860	-
ATTED-II	AT5G56860	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: First observed in the inflorescence meristem (IM) and young flower buds (PubMed:23335616). Detected throughout the floral bud. In young flowers, restricted to the inner whorls, specifically the petals, stamens, and carpels (PubMed:18417639, PubMed:23335616). In older flowers, present in the petals, stamen filaments and carpels, with weaker expression in the anthers of the stamens (PubMed:18417639). Observed in anther locules, vascular strands, and ovules (PubMed:23335616). During imbibition, expressed in the endosperm, especially at the time of testa rupture. Later restricted to the embryonic root (PubMed:20844019). In mature embryos, observed in the cotyledons and hypocotyl. In young seedlings, mostly expressed in shoot tissues, including the tip, circumference, and vasculature of the cotyledons, the emerging leaves, the meristematic region, and the basal part of the hypocotyl, and, at low levels, in the primary roots. In older seedlings, accumulates in the green shoot tissues (PubMed:22811435). {ECO:0000269\|PubMed:18417639, ECO:0000269\|PubMed:20844019, ECO:0000269\|PubMed:22811435, ECO:0000269\|PubMed:23335616}.
Uniprot	TISSUE SPECIFICITY: Expressed predominantly in leaves, and barely in stems, flowers and siliques. {ECO:0000269\|PubMed:18417639, ECO:0000269\|PubMed:22811435}.

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a member of the GATA factor family of zinc finger transcription factors.
UniProt	Transcriptional regulator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters (PubMed:22102866, PubMed:25077795). Involved in the modulation of chloroplast development, growth and division in a cytokinin-dependent manner (PubMed:22102866, PubMed:22811435). Repressor of the gibberellic acid (GA) signaling pathway that represses flowering and modulates greening, in a SOC1-dependent manner (PubMed:20844019, PubMed:23739688, PubMed:25077795). Prevents the accumulation of SOC1 during flowering (PubMed:23739688). Promotes chlorophyll biosynthesis throughout the plant, by regulating chlorophyll biosynthetic genes (e.g. HEMA1 and GUN4) and chloroplast localized glutamate synthase (e.g. GLU1) (PubMed:18417639, PubMed:20844019, PubMed:22102866, PubMed:23878229, PubMed:25077795). Involved in the regulation of sugar-sensing genes (e.g. HXK1, HXK2, STP13 and PLT6) (PubMed:18417639). Regulator of germination, senescence, elongation growth and flowering time (PubMed:20844019, PubMed:22102866, PubMed:23878229). Influences also leaf starch content (PubMed:22102866). {ECO:0000269\|PubMed:18417639, ECO:0000269\|PubMed:20844019, ECO:0000269\|PubMed:22102866, ECO:0000269\|PubMed:22811435, ECO:0000269\|PubMed:23739688, ECO:0000269\|PubMed:23878229, ECO:0000269\|PubMed:25077795}.

Function -- GeneRIF ? help Back to Top
GNC and CGA1 regulate chlorophyll production, and positively regulate chloroplast growth in the hypocotyl. GNC overexpression promotes chloroplast biogenesis in the root. [PMID: 22811435] a cross-repressive interaction of GNC and GNL on the one side and SOC1 on the other in the control of flowering time, greening, and cold tolerance [PMID: 23739688] Data indicate that CARBON-METABOLISM INVOLVED (GNC) and GNC-LIKE (GNL)/CYTOKININ-RESPONSIVE GATA FACTOR1 (CGA1) expression is repressed by AUXIN RESPONSE FACTO ARF2 and ARF7. [PMID: 23878229] Results indicate key regulatory features of the GATA NITRATE-INDUCIBLE CARBON-METABOLISM-INVOLVED (GNC) and GOLDEN TWO-LIKE (GLK2) transcription factor families that contribute to the control of chloroplast biogenesis and photosynthetic activity. [PMID: 30002259]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT5G56860.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Activated by gibberellic acid (GA) (PubMed:20844019). Negatively regulated by AP3/PI (PubMed:18417639). Strong accumulation during cold imbibition of nondormant seeds, but not at warm temperatures. Regulated by PIF transcription factors (PubMed:20844019). Induced by cytokinin (e.g. benzyladenine) (PubMed:22811435). Repressed by HAN (PubMed:23335616). Inhibited by SOC1 (PubMed:23739688). Down-regulated by auxin (2,4D) and auxin response factors (e.g. ARF2 and ARF7) (PubMed:23878229). {ECO:0000269\|PubMed:18417639, ECO:0000269\|PubMed:20844019, ECO:0000269\|PubMed:22811435, ECO:0000269\|PubMed:23335616, ECO:0000269\|PubMed:23739688, ECO:0000269\|PubMed:23878229}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Regulation -- ATRM (Manually Curated Upstream Regulators) ? help Back to Top
Source	Upstream Regulator (A: Activate/R: Repress)
ATRM	AT3G54340 (R), AT5G20240 (R)

Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source	Target Gene (A: Activate/R: Repress)
ATRM	AT1G57990(A), AT2G15890(R), AT2G29350(A), AT4G29130(R), AT4G30270(A), AT4G35770(A), AT5G26340(A/R)

Interaction ? help Back to Top
Source	Intact With
IntAct	Search Q5HZ36

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT5G56860

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT025970	0.0	BT025970.1 Arabidopsis thaliana At5g56860 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_200497.1	0.0	GATA type zinc finger transcription factor family protein
Swissprot	Q5HZ36	0.0	GAT21_ARATH; GATA transcription factor 21
TrEMBL	Q1EBW4	0.0	Q1EBW4_ARATH; At5g56860
STRING	AT5G56860.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2109	26	75
Representative plant	OGRP68	17	287

Link Out ? help Back to Top
Phytozome	AT5G56860.1
Entrez Gene	835788
iHOP	AT5G56860
wikigenes	AT5G56860

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Jeong MJ,Jeong MJ,Shih MC Interaction of a GATA factor with cis-acting elements involved in light regulation of nuclear genes encoding chloroplast glyceraldehyde-3-phosphate dehydrogenase in Arabidopsis. Biochem. Biophys. Res. Commun., 2003. 300(2): p. 555-62 [PMID:12504119] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Czechowski T,Bari RP,Stitt M,Scheible WR,Udvardi MK Real-time RT-PCR profiling of over 1400 Arabidopsis transcription factors: unprecedented sensitivity reveals novel root- and shoot-specific genes. Plant J., 2004. 38(2): p. 366-79 [PMID:15078338] Reyes JC,Muro-Pastor MI,Florencio FJ The GATA family of transcription factors in Arabidopsis and rice. Plant Physiol., 2004. 134(4): p. 1718-32 [PMID:15084732] S ABA activates ADPR cyclase and cADPR induces a subset of ABA-responsive genes in Arabidopsis. Plant J., 2004. 38(3): p. 381-95 [PMID:15086800] Scheible WR, et al. Genome-wide reprogramming of primary and secondary metabolism, protein synthesis, cellular growth processes, and the regulatory infrastructure of Arabidopsis in response to nitrogen. Plant Physiol., 2004. 136(1): p. 2483-99 [PMID:15375205] Kiba T, et al. Combinatorial microarray analysis revealing arabidopsis genes implicated in cytokinin responses through the His->Asp Phosphorelay circuitry. Plant Cell Physiol., 2005. 46(2): p. 339-55 [PMID:15695462] Bi YM, et al. Genetic analysis of Arabidopsis GATA transcription factor gene family reveals a nitrate-inducible member important for chlorophyll synthesis and glucose sensitivity. Plant J., 2005. 44(4): p. 680-92 [PMID:16262716] Manfield IW,Devlin PF,Jen CH,Westhead DR,Gilmartin PM Conservation, convergence, and divergence of light-responsive, circadian-regulated, and tissue-specific expression patterns during evolution of the Arabidopsis GATA gene family. Plant Physiol., 2007. 143(2): p. 941-58 [PMID:17208962] Sottosanto JB,Saranga Y,Blumwald E Impact of AtNHX1, a vacuolar Na+/H+ antiporter, upon gene expression during short- and long-term salt stress in Arabidopsis thaliana. BMC Plant Biol., 2007. 7: p. 18 [PMID:17411438] Naito T,Kiba T,Koizumi N,Yamashino T,Mizuno T Characterization of a unique GATA family gene that responds to both light and cytokinin in Arabidopsis thaliana. Biosci. Biotechnol. Biochem., 2007. 71(6): p. 1557-60 [PMID:17587690] Mara CD,Irish VF Two GATA transcription factors are downstream effectors of floral homeotic gene action in Arabidopsis. Plant Physiol., 2008. 147(2): p. 707-18 [PMID:18417639] Bowen AJ, et al. PAH-domain-specific interactions of the Arabidopsis transcription coregulator SIN3-LIKE1 (SNL1) with telomere-binding protein 1 and ALWAYS EARLY2 Myb-DNA binding factors. J. Mol. Biol., 2010. 395(5): p. 937-49 [PMID:19962994] Richter R,Behringer C,M The GATA-type transcription factors GNC and GNL/CGA1 repress gibberellin signaling downstream from DELLA proteins and PHYTOCHROME-INTERACTING FACTORS. Genes Dev., 2010. 24(18): p. 2093-104 [PMID:20844019] Hudson D, et al. GNC and CGA1 modulate chlorophyll biosynthesis and glutamate synthase (GLU1/Fd-GOGAT) expression in Arabidopsis. PLoS ONE, 2011. 6(11): p. e26765 [PMID:22102866] Chiang YH, et al. Functional characterization of the GATA transcription factors GNC and CGA1 reveals their key role in chloroplast development, growth, and division in Arabidopsis. Plant Physiol., 2012. 160(1): p. 332-48 [PMID:22811435] Zhang X, et al. Transcription repressor HANABA TARANU controls flower development by integrating the actions of multiple hormones, floral organ specification genes, and GATA3 family genes in Arabidopsis. Plant Cell, 2013. 25(1): p. 83-101 [PMID:23335616] Richter R,Bastakis E,Schwechheimer C Cross-repressive interactions between SOC1 and the GATAs GNC and GNL/CGA1 in the control of greening, cold tolerance, and flowering time in Arabidopsis. Plant Physiol., 2013. 162(4): p. 1992-2004 [PMID:23739688] Richter R,Behringer C,Zourelidou M,Schwechheimer C Convergence of auxin and gibberellin signaling on the regulation of the GATA transcription factors GNC and GNL in Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A., 2013. 110(32): p. 13192-7 [PMID:23878229] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Behringer C,Bastakis E,Ranftl QL,Mayer KF,Schwechheimer C Functional diversification within the family of B-GATA transcription factors through the leucine-leucine-methionine domain. Plant Physiol., 2014. 166(1): p. 293-305 [PMID:25077795] Jin J, et al. An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors. Mol. Biol. Evol., 2015. 32(7): p. 1767-73 [PMID:25750178] Behringer C,Schwechheimer C B-GATA transcription factors - insights into their structure, regulation, and role in plant development. Front Plant Sci, 2015. 6: p. 90 [PMID:25755661] Zhang C, et al. Genome-wide survey of the soybean GATA transcription factor gene family and expression analysis under low nitrogen stress. PLoS ONE, 2015. 10(4): p. e0125174 [PMID:25886477] Mao WT, et al. The C-Terminal Sequence and PI motif of the Orchid (Oncidium Gower Ramsey) PISTILLATA (PI) Ortholog Determine its Ability to Bind AP3 Orthologs and Enter the Nucleus to Regulate Downstream Genes Controlling Petal and Stamen Formation. Plant Cell Physiol., 2015. 56(11): p. 2079-99 [PMID:26423960] Ranftl QL,Bastakis E,Klermund C,Schwechheimer C LLM-Domain Containing B-GATA Factors Control Different Aspects of Cytokinin-Regulated Development in Arabidopsis thaliana. Plant Physiol., 2016. 170(4): p. 2295-311 [PMID:26829982] Klermund C, et al. LLM-Domain B-GATA Transcription Factors Promote Stomatal Development Downstream of Light Signaling Pathways in Arabidopsis thaliana Hypocotyls. Plant Cell, 2016. 28(3): p. 646-60 [PMID:26917680] Bastakis E,Hedtke B,Klermund C,Grimm B,Schwechheimer C LLM-Domain B-GATA Transcription Factors Play Multifaceted Roles in Controlling Greening in Arabidopsis. Plant Cell, 2018. 30(3): p. 582-599 [PMID:29453227] Zubo YO, et al. Coordination of Chloroplast Development through the Action of the GNC and GLK Transcription Factor Families. Plant Physiol., 2018. 178(1): p. 130-147 [PMID:30002259]