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

PH01000194G0810

Organism

Phyllostachys heterocycla

Taxonomic ID

38705

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Bambusoideae; Arundinarodae; Arundinarieae; Arundinariinae; Phyllostachys

Family

C2H2

Protein Properties

Length: 464aa MW: 51071.1 Da PI: 8.2238

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PH01000194G0810	genome	ICBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.3	1.3e-05	113	135	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H PH01000194G0810 113 FVCEICNKGFQRDQNLQLHRRGH 135 89*******************88 PP
2	zf-C2H2	13	0.0003	198	220	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ Cgk++ +s+ k H +++ PH01000194G0810 198 WRCERCGKRYAVHSDWKAHVKNC 220 58******************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.52E-8	112	135	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.5E-5	112	135	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	7.3E-5	113	135	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.017	113	135	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	113	135	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	115	135	IPR007087	Zinc finger, C2H2
SMART	SM00355	89	163	193	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.0E-4	186	218	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.52E-8	193	218	No hit	No description
SMART	SM00355	99	198	218	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: 464 aa Download sequence Send to blast
MLLSDLSDQE ATGSNSHGGD IGNHVLISPV FAPASTLLLP PMQQLEEPKA KKKRSQPGNP 60 GINLRTQENL VVLCIFFFHQ ELLFDWFALL VMQDPEAEVI ALSPRTLVAT NRFVCEICNK 120 GFQRDQNLQL HRRGHNLPWK LRQRSSLPSS SAKGDAPARK RVYVCPEPTC VHHDPARALG 180 DLTGIKKHFS RKHGEKRWRC ERCGKRYAVH SDWKAHVKNC GTREYRCDCG ILFSSAGFNF 240 LLSLYHLLPG RFHISISWYT LPALASEIKG WSFKQKDSLL THRAFCDALA EESARLLAAA 300 NNSSSITTTN CNNSSSSSSP LFLPFSNPPP AQNPNPNPLL FLSQEAHVLP PFQPSPYLDL 360 PVATSTITSS NSVAGDVADM VSFGLTYEGS VTLHAGGHRL TRNFLGVDAG EVDELQLPLC 420 ATACQGCTIP TTTVSRAACC ATDLTRQYLG RLPPVNETWS HNF*

Sequence ? help Back to Top

Protein Sequence Length: 464 aa Download sequence Send to blast

MLLSDLSDQE ATGSNSHGGD IGNHVLISPV FAPASTLLLP PMQQLEEPKA KKKRSQPGNP  60
GINLRTQENL VVLCIFFFHQ ELLFDWFALL VMQDPEAEVI ALSPRTLVAT NRFVCEICNK  120
GFQRDQNLQL HRRGHNLPWK LRQRSSLPSS SAKGDAPARK RVYVCPEPTC VHHDPARALG  180
DLTGIKKHFS RKHGEKRWRC ERCGKRYAVH SDWKAHVKNC GTREYRCDCG ILFSSAGFNF  240
LLSLYHLLPG RFHISISWYT LPALASEIKG WSFKQKDSLL THRAFCDALA EESARLLAAA  300
NNSSSITTTN CNNSSSSSSP LFLPFSNPPP AQNPNPNPLL FLSQEAHVLP PFQPSPYLDL  360
PVATSTITSS NSVAGDVADM VSFGLTYEGS VTLHAGGHRL TRNFLGVDAG EVDELQLPLC  420
ATACQGCTIP TTTVSRAACC ATDLTRQYLG RLPPVNETWS HNF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-25	194	303	3	72	Zinc finger protein JACKDAW
5b3h_F	1e-25	194	303	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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PH01000194G0810

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	AK361456	1e-137	AK361456.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv1141C05.

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-153	EHD2_ORYSJ; Protein EARLY HEADING DATE 2
TrEMBL	N1R3S7	1e-180	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
AT3G50700.1	2e-79	indeterminate(ID)-domain 2

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]