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

Tp57577_TGAC_v2_mRNA29544

Organism

Trifolium pratense

Taxonomic ID

57577

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium

Family

C2H2

Protein Properties

Length: 192aa MW: 22184.7 Da PI: 9.8151

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp57577_TGAC_v2_mRNA29544	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.3	2.8e-05	78	100	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C k F r nL+ H r H Tp57577_TGAC_v2_mRNA29544 78 FVCEICLKGFQRDQNLQLHRRGH 100 89*******************88 PP
2	zf-C2H2	14.2	0.00012	154	176	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s++k H +t+ Tp57577_TGAC_v2_mRNA29544 154 WKCEKCSKFYAVQSDMKAHSKTC 176 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	5.5E-5	77	100	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	9.41E-6	77	100	No hit	No description
SMART	SM00355	0.21	78	100	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.305	78	100	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	80	100	IPR007087	Zinc finger, C2H2
SMART	SM00355	250	119	149	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.6E-4	142	175	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	9.41E-6	149	174	No hit	No description
SMART	SM00355	100	154	174	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: 192 aa Download sequence Send to blast
IEENMDNRDI SNGFLHENTT SSSNENPPIL KRKRNLPGNP VICICVFVSV FHRLYIYADP 60 EAEVISLSPK TLMATNRFVC EICLKGFQRD QNLQLHRRGH NLPWKLKQRT SKEIRKRVYV 120 CPEKTCVHNH PSRALGDLTG IKKHFCRKHG EKKWKCEKCS KFYAVQSDMK AHSKTCGTRE 180 YKCDCGTIFS R*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-20	150	191	3	44	Zinc finger protein JACKDAW
5b3h_F	1e-20	150	191	3	44	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269\|PubMed:17785527, ECO:0000269\|PubMed:21935722, ECO:0000269\|PubMed:24821766, ECO:0000269\|PubMed:25829440}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp57577_TGAC_v2_mRNA29544

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269\|PubMed:21935722}.

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	AC140547	1e-109	AC140547.18 Medicago truncatula clone mth2-17p16, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024633339.1	1e-117	zinc finger protein MAGPIE
Swissprot	Q9ZWA6	1e-95	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A2K3PSA1	1e-119	A0A2K3PSA1_TRIPR; Zinc finger protein MAGPIE-like
STRING	XP_004487192.1	1e-112	(Cicer arietinum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF181	34	275

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.1	5e-98	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Tp57577_TGAC_v2_mRNA29544

Publications ? help Back to Top
Muñoz-Strale D,León G Identification of two highly specific pollen promoters using transcriptomic data. Plant Physiol. Biochem., 2014. 83: p. 292-9 [PMID:25208507] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]