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

PH01000546G0810

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: 214aa MW: 24185.5 Da PI: 9.9857

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PH01000546G0810	genome	ICBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.7	4.7e-06	80	102	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H PH01000546G0810 80 FVCEICNKGFQRDQNLQLHRRGH 102 89*******************88 PP
2	zf-C2H2	14.4	0.00011	165	187	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ Cgk++ +s+ k H +++ PH01000546G0810 165 WRCERCGKRYAVHSDWKAHVKNC 187 58******************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.87E-7	79	102	No hit	No description
Gene3D	G3DSA:3.30.160.60	5.5E-6	79	102	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	2.7E-5	80	102	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.949	80	102	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	80	102	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	82	102	IPR007087	Zinc finger, C2H2
SMART	SM00355	89	130	160	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	3.87E-7	160	185	No hit	No description
SMART	SM00355	99	165	185	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: 214 aa Download sequence Send to blast
MLLSDLSSDQ EATGSNSHGR DIGNHFLINH PFAPAATLLL PPVQLEEPKA KKKRSQPGNP 60 DPESEVIALS PRTLVATNRF VCEICNKGFQ RDQNLQLHRR GHNLPWKLRQ RSSLPSSSAK 120 GEAPARKRVY VCPEPTCVHH DPARALGDLT GIKKHFSRKH CEKRWRCERC GKRYAVHSDW 180 KAHVKNCGTR EYRCDCGILF SRSWDSNVLA FSW*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-18	162	202	4	44	Zinc finger protein JACKDAW
5b3h_F	3e-18	162	202	4	44	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PH01000546G0810

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK361456	1e-145	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	1e-107	protein indeterminate-domain 12-like
Swissprot	B1B534	1e-104	EHD2_ORYSJ; Protein EARLY HEADING DATE 2
TrEMBL	A5GXZ9	1e-109	A5GXZ9_LOLMU; Putative zinc finger protein ID1
STRING	EMT17041	1e-107	(Aegilops tauschii)
STRING	Pavir.Ia01907.1.p	1e-107	(Panicum virgatum)
STRING	Pavir.J19424.1.p	1e-107	(Panicum virgatum)

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	1e-85	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] 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]