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

OPUNC10G08850.1

Organism

Oryza punctata

Taxonomic ID

4537

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

C2H2

Protein Properties

Length: 449aa MW: 47802.4 Da PI: 6.7279

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OPUNC10G08850.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.7	2.1e-05	102	124	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H OPUNC10G08850.1 102 FVCEVCNKGFQRDQNLQLHRRGH 124 89*******************88 PP
2	zf-C2H2	13.1	0.00029	170	192	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ Cgk++ +s+ k H +++ OPUNC10G08850.1 170 WRCERCGKRYAVHSDWKAHVKNC 192 58******************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	9.3E-6	101	124	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.09E-8	101	124	No hit	No description
SMART	SM00355	0.021	102	124	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	8.4E-5	102	124	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.97	102	124	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	104	124	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	4.6E-4	158	190	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.09E-8	165	190	No hit	No description
SMART	SM00355	99	170	190	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: 449 aa Download sequence Send to blast
MLLSDLSSDQ EATGSNSHGG GGGGDHMVVG SHGAHVVLSN LFLPPVATTM LLPPAVMVRP 60 AAMAVVEEEP KAKKKRSLPG NPDPEAEVIA LSPRALVATN RFVCEVCNKG FQRDQNLQLH 120 RRGHNLPCGD GGAGAEEEGP TCVHHDPARA LGDLTGIKKH FSRKHGEKRW RCERCGKRYA 180 VHSDWKAHVK NCGTREYRCD CGILFSRKDS LLTHRAFCDA LAEESARLLA AANNSGSITT 240 CNNNSSSNIN SISNNNNLLI TSSSSSSPPL FLPFSTTPPA AENPNPNPLL FLQQHQAAHH 300 HQLLPQFQLP SSPPAYFDHL AFGAGGVITG SSNDDNSSIA GDVMVAGDSV SFGLTSEGSV 360 TMHAGVGRRL TRDFLGVDHD AGEVEELELD HELPLSTTTA TATACQGCSF AATTTAVSRA 420 ACCATDFTTG SRQYLGRLPP VNETWSHNF

Sequence ? help Back to Top

Protein Sequence Length: 449 aa Download sequence Send to blast

MLLSDLSSDQ EATGSNSHGG GGGGDHMVVG SHGAHVVLSN LFLPPVATTM LLPPAVMVRP  60
AAMAVVEEEP KAKKKRSLPG NPDPEAEVIA LSPRALVATN RFVCEVCNKG FQRDQNLQLH  120
RRGHNLPCGD GGAGAEEEGP TCVHHDPARA LGDLTGIKKH FSRKHGEKRW RCERCGKRYA  180
VHSDWKAHVK NCGTREYRCD CGILFSRKDS LLTHRAFCDA LAEESARLLA AANNSGSITT  240
CNNNSSSNIN SISNNNNLLI TSSSSSSPPL FLPFSTTPPA AENPNPNPLL FLQQHQAAHH  300
HQLLPQFQLP SSPPAYFDHL AFGAGGVITG SSNDDNSSIA GDVMVAGDSV SFGLTSEGSV  360
TMHAGVGRRL TRDFLGVDHD AGEVEELELD HELPLSTTTA TATACQGCSF AATTTAVSRA  420
ACCATDFTTG SRQYLGRLPP VNETWSHNF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-33	166	235	3	72	Zinc finger protein JACKDAW
5b3h_F	6e-33	166	235	3	72	Zinc finger protein JACKDAW
Search in ModeBase

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 (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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB359195	1e-153	AB359195.1 Oryza sativa Japonica Group Ehd2 gene for early heading date 2, complete cds, cultivar: Tohoku IL9.
GenBank	AB359196	1e-153	AB359196.1 Oryza sativa Japonica Group Ehd2 mRNA for early heading date 2, complete cds, cultivar: Tohoku IL9.
GenBank	AB359197	1e-153	AB359197.1 Oryza sativa Japonica Group Ehd2 gene for early heading date 2, complete cds, cultivar: R0364.
GenBank	AB359198	1e-153	AB359198.1 Oryza sativa Japonica Group Ehd2 mRNA for early heading date 2, complete cds, cultivar: R0364.
GenBank	AC027658	1e-153	AC027658.1 Oryza sativa (japonica cultivar-group) BAC nbxb0006I13 chromosome 10, complete sequence.
GenBank	AP014966	1e-153	AP014966.1 Oryza sativa Japonica Group DNA, chromosome 10, cultivar: Nipponbare, complete sequence.
GenBank	CP012618	1e-153	CP012618.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 10 sequence.
GenBank	FJ009578	1e-153	FJ009578.1 Oryza sativa Japonica Group cultivar Zhonghua 11 Cys2/His2-type zinc finger transcription factor (RID1) mRNA, complete cds.
GenBank	FJ009579	1e-153	FJ009579.1 Oryza sativa Japonica Group cultivar Zhonghua 11 Cys2/His2-type zinc finger transcription factor (RID1) gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015614407.1	0.0	protein indeterminate-domain 12
Swissprot	B1B534	0.0	EHD2_ORYSJ; Protein EARLY HEADING DATE 2
TrEMBL	A0A0E0M7R6	0.0	A0A0E0M7R6_ORYPU; Uncharacterized protein
STRING	OPUNC10G08850.1	0.0	(Oryza punctata)

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
AT3G45260.1	1e-76	C2H2-like zinc finger 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] 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]