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

Traes_6DS_DE865EA6D.1

Organism

Triticum aestivum

Taxonomic ID

4565

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Triticinae; Triticum

Family

C2H2

Protein Properties

Length: 409aa MW: 44698.7 Da PI: 8.5035

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Traes_6DS_DE865EA6D.1	genome	IWGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.6	1.1e-05	91	113	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Traes_6DS_DE865EA6D.1 91 FVCEICNKGFQRDQNLQLHRRGH 113 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.41E-7	90	113	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.3E-5	90	113	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.017	91	113	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	6.2E-5	91	113	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.949	91	113	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	93	113	IPR007087	Zinc finger, C2H2
SMART	SM00355	89	142	172	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	0.001	165	197	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.41E-7	172	197	No hit	No description
SMART	SM00355	210	177	197	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 409 aa Download sequence Send to blast
MMLCDLSSDH HEATGSSSHG GDLGFSSHVL LSPLFAPAAT PTPLLPRPAP PLLGLEEPAR 60 AKRKRSQPGN PDPGAEVIAL SPRTLVATNR FVCEICNKGF QRDQNLQLHR RGHNLPWKLR 120 QRTVLLPRPG GDGSGAPRKR VYVCPEPTCV HHDPARALGD LTGIKKHFSR KHGEKRWKCE 180 RCAKRYAVHS DWKAHVKNCG TREYRCDCGI LFSRKDSLLT HRAFCDALAE ESARLIAAAN 240 NSITTTTACN NNSGGSSNDI SNMLMPSNSS PLFLPFSSPP HAQNPNPLMF LSQEPHHHQV 300 LPPFQPLTYL DDLPMTTGSG STVSADTVSF RLTPEGSVTM HAGGRHLTRD FLGVDNAGEV 360 EELQMPVPLC AAAYQGRSIG PTTACCATDL TRQYLGRLPP VNEPWSHNF

Sequence ? help Back to Top

Protein Sequence Length: 409 aa Download sequence Send to blast

MMLCDLSSDH HEATGSSSHG GDLGFSSHVL LSPLFAPAAT PTPLLPRPAP PLLGLEEPAR  60
AKRKRSQPGN PDPGAEVIAL SPRTLVATNR FVCEICNKGF QRDQNLQLHR RGHNLPWKLR  120
QRTVLLPRPG GDGSGAPRKR VYVCPEPTCV HHDPARALGD LTGIKKHFSR KHGEKRWKCE  180
RCAKRYAVHS DWKAHVKNCG TREYRCDCGI LFSRKDSLLT HRAFCDALAE ESARLIAAAN  240
NSITTTTACN NNSGGSSNDI SNMLMPSNSS PLFLPFSSPP HAQNPNPLMF LSQEPHHHQV  300
LPPFQPLTYL DDLPMTTGSG STVSADTVSF RLTPEGSVTM HAGGRHLTRD FLGVDNAGEV  360
EELQMPVPLC AAAYQGRSIG PTTACCATDL TRQYLGRLPP VNEPWSHNF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-34	173	242	3	72	Zinc finger protein JACKDAW
5b3h_F	2e-34	173	242	3	72	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	58	66	ARAKRKRSQ

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that acts as a flowering master switch in both long and short days, independently of the circadian clock (By similarity). Promotes flowering upstream of HD1 by up-regulating FTL1, FTL4, FTL5, FTL6, EHD1, HD3A and RFT1 (By similarity). Seems to repress FTL11 expression (By similarity). May recognize the consensus motif 5'-TTTGTCGTAAT-3' in target gene promoters (By similarity). {ECO:0000250\|UniProtKB:B1B534}.
UniProt	Transcription activator that acts as a flowering master switch in both long and short days, independently of the circadian clock (PubMed:18790997, PubMed:18725639, PubMed:18774969, PubMed:19304997, PubMed:24280027). Promotes flowering upstream of HD1 by up-regulating FTL1, FTL4, FTL5, FTL6, EHD1, HD3A and RFT1 (PubMed:18790997, PubMed:18725639, PubMed:18774969). Seems to repress FTL11 expression (PubMed:18725639). May recognize the consensus motif 5'-TTTGTCGTAAT-3' in target gene promoters (PubMed:18725639). {ECO:0000269\|PubMed:18725639, ECO:0000269\|PubMed:18774969, ECO:0000269\|PubMed:18790997, ECO:0000269\|PubMed:24280027, ECO:0000303\|PubMed:19304997}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00673	SELEX	Transfer from GRMZM2G011357	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by FKF1 (PubMed:25850808). Down-regulated by DLF1 (PubMed:25036785). During the basic vegetative growth phase (BVP, photoperiod-insensitive phase), suppressed via phytochrome-mediated light signals involving the phytochromobilin synthase HY2 (PubMed:25573482). {ECO:0000269\|PubMed:25036785, ECO:0000269\|PubMed:25573482, ECO:0000269\|PubMed:25850808}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020165515.1	0.0	protein indeterminate-domain 12-like
Swissprot	B1B534	1e-154	EHD2_ORYSJ; Protein EARLY HEADING DATE 2
Swissprot	B8BGV5	1e-154	EHD2_ORYSI; Protein EARLY HEADING DATE 2
TrEMBL	N1R3S7	0.0	N1R3S7_AEGTA; Zinc finger protein MAGPIE
STRING	Traes_6DS_DE865EA6D.1	0.0	(Triticum aestivum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP13096	28	32

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.1	6e-98	C2H2 family protein

Publications ? help Back to Top
Rice Chromosome 10 Sequencing Consortium In-depth view of structure, activity, and evolution of rice chromosome 10. Science, 2003. 300(5625): p. 1566-9 [PMID:12791992] Park SJ, et al. Rice Indeterminate 1 (OsId1) is necessary for the expression of Ehd1 (Early heading date 1) regardless of photoperiod. Plant J., 2008. 56(6): p. 1018-29 [PMID:18774969] Song Y,Gao Z,Luan W Interaction between temperature and photoperiod in regulation of flowering time in rice. Sci China Life Sci, 2012. 55(3): p. 241-9 [PMID:22527521] Brenchley R, et al. Analysis of the bread wheat genome using whole-genome shotgun sequencing. Nature, 2012. 491(7426): p. 705-10 [PMID:23192148] Hu S, et al. A point mutation in the zinc finger motif of RID1/EHD2/OsID1 protein leads to outstanding yield-related traits in japonica rice variety Wuyunjing 7. Rice (N Y), 2013. 6(1): p. 24 [PMID:24280027] Cai Y, et al. Dlf1, a WRKY transcription factor, is involved in the control of flowering time and plant height in rice. PLoS ONE, 2014. 9(7): p. e102529 [PMID:25036785] Yoshitake Y, et al. The effects of phytochrome-mediated light signals on the developmental acquisition of photoperiod sensitivity in rice. Sci Rep, 2015. 5: p. 7709 [PMID:25573482] Han SH,Yoo SC,Lee BD,An G,Paek NC Rice FLAVIN-BINDING, KELCH REPEAT, F-BOX 1 (OsFKF1) promotes flowering independent of photoperiod. Plant Cell Environ., 2015. 38(12): p. 2527-40 [PMID:25850808] Jin J, et al. MORF-RELATED GENE702, a Reader Protein of Trimethylated Histone H3 Lysine 4 and Histone H3 Lysine 36, Is Involved in Brassinosteroid-Regulated Growth and Flowering Time Control in Rice. Plant Physiol., 2015. 168(4): p. 1275-85 [PMID:25855537] Brambilla V,Gomez-Ariza J,Cerise M,Fornara F The Importance of Being on Time: Regulatory Networks Controlling Photoperiodic Flowering in Cereals. Front Plant Sci, 2017. 8: p. 665 [PMID:28491078]