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

XP_010540460.1

Organism

Tarenaya hassleriana

Taxonomic ID

28532

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Cleomaceae; Tarenaya

Family

C3H

Protein Properties

Length: 813aa MW: 89948.6 Da PI: 4.302

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_010540460.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	23.9	7.3e-08	348	367	6	26
-SGGGGTS--TTTTT-SS-SS CS zf-CCCH 6 CrffartGtCkyGdrCkFaHg 26 C+ffa+ G+C +G +C+F H+ XP_010540460.1 348 CDFFAK-GWCIRGKSCRFLHV 367 ****.***********7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	14.07	342	369	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0087	342	368	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.01E-5	343	366	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	9.0E-6	347	367	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010220	Biological Process	positive regulation of vernalization response
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 813 aa Download sequence Send to blast
MDAEEIDVEE EEMEVEEVEE EEEEEDPEEE ELIEEVEEEV IEEEEEDPEE EELIEEVEGE 60 VIEEVEEEED PEEEEEVVEV EEEEVVEVEE EGEEQANQDV EESCNSPSKP SDLQEDVERG 120 SESNRLDGRL ASCSSRTEEF KSCPELNSDV RVLKSTSPSD EQSTTLKDTC LSFENSEKEL 180 TLTEDKGTQD AWEDEKDSEL PTGDSKVNNL SLENNDKPRP DNIELVSLGN TGISNTAGGK 240 TCDSVPSSSG VGQRPNGACN SGNKRSNIKS EDENSGTVSG NRAGDKVSDS VPGGADICQK 300 TDFACNSGKG RSNIIFEDEK RGIKSRPRSF SPGGEIKEPQ QKRAGIVCDF FAKGWCIRGK 360 SCRFLHVKDN SNNANQRQAS NNVAGNSEIR PGEERITSDN RVSGKSCEAK QNSEASLHSR 420 EKIYVVNSQA SQRFFSSKED MGFMWSSKDM GRERLKQNFG ADGLENRSLF FNGGDPSIPR 480 SSSVHGHRSS VSSSSKLDIV PSQPAWTRSF HTSVSASGGQ GQFDSGNKFY GSESLSHRDP 540 EGNAASKKAK VTSNDWEPSE PFRPSFVIPP SILPPCSTMY DPFLDGMDAQ NLEDDLLNDS 600 VSSKGEHTQK TSHHHKDGDS GSGPQAEDCN DDKSSSCSQN QYQEAAPEKN SEIHEMEMMA 660 TSVVEQNEVN PKKGKSSGPA HKKDVKRSRP AGGYDAWRKS NMSSNIKIAR ADKATDDVDG 720 EVRSDAGMKV MRNFRTALIE NIKELLKPIW REGRLSKDVH NMIVKKAVEK VISTAVQFHQ 780 VPTDTESIEQ YLSVSQTKIV KLVEGYVEKF RKS

Sequence ? help Back to Top

Protein Sequence Length: 813 aa Download sequence Send to blast

MDAEEIDVEE EEMEVEEVEE EEEEEDPEEE ELIEEVEEEV IEEEEEDPEE EELIEEVEGE  60
VIEEVEEEED PEEEEEVVEV EEEEVVEVEE EGEEQANQDV EESCNSPSKP SDLQEDVERG  120
SESNRLDGRL ASCSSRTEEF KSCPELNSDV RVLKSTSPSD EQSTTLKDTC LSFENSEKEL  180
TLTEDKGTQD AWEDEKDSEL PTGDSKVNNL SLENNDKPRP DNIELVSLGN TGISNTAGGK  240
TCDSVPSSSG VGQRPNGACN SGNKRSNIKS EDENSGTVSG NRAGDKVSDS VPGGADICQK  300
TDFACNSGKG RSNIIFEDEK RGIKSRPRSF SPGGEIKEPQ QKRAGIVCDF FAKGWCIRGK  360
SCRFLHVKDN SNNANQRQAS NNVAGNSEIR PGEERITSDN RVSGKSCEAK QNSEASLHSR  420
EKIYVVNSQA SQRFFSSKED MGFMWSSKDM GRERLKQNFG ADGLENRSLF FNGGDPSIPR  480
SSSVHGHRSS VSSSSKLDIV PSQPAWTRSF HTSVSASGGQ GQFDSGNKFY GSESLSHRDP  540
EGNAASKKAK VTSNDWEPSE PFRPSFVIPP SILPPCSTMY DPFLDGMDAQ NLEDDLLNDS  600
VSSKGEHTQK TSHHHKDGDS GSGPQAEDCN DDKSSSCSQN QYQEAAPEKN SEIHEMEMMA  660
TSVVEQNEVN PKKGKSSGPA HKKDVKRSRP AGGYDAWRKS NMSSNIKIAR ADKATDDVDG  720
EVRSDAGMKV MRNFRTALIE NIKELLKPIW REGRLSKDVH NMIVKKAVEK VISTAVQFHQ  780
VPTDTESIEQ YLSVSQTKIV KLVEGYVEKF RKS

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator involved in the FRIGIDA-mediated vernalization pathway, but not in the autonomous flowering pathway. Acts cooperatively with FRI (FRIGIDA) or FRL1 (FRIGIDA-LIKE 1) to promote FLC (FLOWERING LOCUS C) expression. Required for the stabilization of the FRI-C complex. {ECO:0000269\|PubMed:16291783, ECO:0000269\|PubMed:21282526}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_010540460.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010540460.1	0.0	PREDICTED: protein FRIGIDA-ESSENTIAL 1 isoform X1
Refseq	XP_010540461.1	0.0	PREDICTED: protein FRIGIDA-ESSENTIAL 1 isoform X1
Refseq	XP_010540462.1	0.0	PREDICTED: protein FRIGIDA-ESSENTIAL 1 isoform X1
Swissprot	Q84VG7	1e-160	FES1_ARATH; Protein FRIGIDA-ESSENTIAL 1
TrEMBL	A0A178VSR1	1e-157	A0A178VSR1_ARATH; FES1
STRING	XP_010540460.1	0.0	(Tarenaya hassleriana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13468	15	21

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G33835.1	1e-147	C3H family protein

Publications ? help Back to Top
Ding L,Kim SY,Michaels SD FLOWERING LOCUS C EXPRESSOR family proteins regulate FLOWERING LOCUS C expression in both winter-annual and rapid-cycling Arabidopsis. Plant Physiol., 2013. 163(1): p. 243-52 [PMID:23899645]