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

RrC680_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

GATA

Protein Properties

Length: 387aa MW: 43971.2 Da PI: 9.6346

Description

GATA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC680_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GATA	60	2.9e-19	231	264	1	34
GATA 1 CsnCgttkTplWRrgpdgnktLCnaCGlyyrkkg 34 Cs C+ttkTplWR+gp+g+k+LCnaCG+++rk + RrC680_p1 231 CSDCNTTKTPLWRSGPRGPKSLCNACGIRQRKAR 264 *******************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00401	1.1E-20	225	277	IPR000679	Zinc finger, GATA-type
SuperFamily	SSF57716	9.5E-13	226	264	No hit	No description
PROSITE profile	PS50114	12.466	229	261	IPR000679	Zinc finger, GATA-type
Gene3D	G3DSA:3.30.50.10	1.9E-15	229	264	IPR013088	Zinc finger, NHR/GATA-type
CDD	cd00202	2.04E-12	230	258	No hit	No description
Pfam	PF00320	5.7E-17	231	264	IPR000679	Zinc finger, GATA-type
PROSITE pattern	PS00344	0	231	256	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:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0008270	Molecular Function	zinc ion binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 387 aa Download sequence Send to blast
MGSNFHYSID LNEDQNHHEQ PFFYPFGPSS SILHNQQQHH HHHQTHKSSC LYHNFLLVYL 60 PFLINSQEDQ HVAYNNTYHD DHLDLSQPLK AKMFNGGSSS SSYDHTAPKK ERRLKLTIKK 120 KDHHEGQTDF LNQNPTKPNA ASDKWLMSPK MRLIKKTITN NKQSFDHTNN SVNNHKEDHY 180 PMDHKTTFKE DRDEELKKVS SRMTTTATTE NRYNTINENG YGNNNGVIRV CSDCNTTKTP 240 LWRSGPRGPK SLCNACGIRQ RKARRAAMAA AAATGDDQEV VAARLHQLPV KKKLQTKKKR 300 SNGGDKYNLS PRVVVKTKKC KLKEEEDGAG MVARDAEISK STTSSDSSVS SNKFCFEDLT 360 IILSKSSAYQ QVFPQDEKEA AILLMAL

Sequence ? help Back to Top

Protein Sequence Length: 387 aa Download sequence Send to blast

MGSNFHYSID LNEDQNHHEQ PFFYPFGPSS SILHNQQQHH HHHQTHKSSC LYHNFLLVYL  60
PFLINSQEDQ HVAYNNTYHD DHLDLSQPLK AKMFNGGSSS SSYDHTAPKK ERRLKLTIKK  120
KDHHEGQTDF LNQNPTKPNA ASDKWLMSPK MRLIKKTITN NKQSFDHTNN SVNNHKEDHY  180
PMDHKTTFKE DRDEELKKVS SRMTTTATTE NRYNTINENG YGNNNGVIRV CSDCNTTKTP  240
LWRSGPRGPK SLCNACGIRQ RKARRAAMAA AAATGDDQEV VAARLHQLPV KKKLQTKKKR  300
SNGGDKYNLS PRVVVKTKKC KLKEEEDGAG MVARDAEISK STTSSDSSVS SNKFCFEDLT  360
IILSKSSAYQ QVFPQDEKEA AILLMAL

Functional Description ? help Back to Top
Source	Description
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}.

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	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018470150.1	0.0	PREDICTED: GATA transcription factor 21-like
Swissprot	Q5HZ36	1e-159	GAT21_ARATH; GATA transcription factor 21
TrEMBL	A0A078G5R1	0.0	A0A078G5R1_BRANA; BnaA02g08490D protein
TrEMBL	A0A398A8J7	0.0	A0A398A8J7_BRACM; Uncharacterized protein
STRING	Bo2g033970.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2109	26	75

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G56860.1	1e-139	GATA family protein

Publications ? help Back to Top
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] 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]