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

RrC4648_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

C2H2

Protein Properties

Length: 355aa MW: 38679.1 Da PI: 8.7822

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC4648_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	12.2	0.00056	36	59	1	23
EEETTTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirt.H 23 +kC+ C+k s+ s ++ H H RrC4648_p1 36 FKCHVCHKKLSTASGMVIHVLQvH 59 89*****************87656 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50808	12.716	7	66	IPR003656	Zinc finger, BED-type
SMART	SM00355	20	12	35	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	6.17E-5	12	61	No hit	No description
PROSITE pattern	PS00028	0	14	35	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.084	36	59	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	38	59	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 355 aa Download sequence Send to blast
MGKKKKRATE KVWCYYCDRE FDDEKILVQH QKAKHFKCHV CHKKLSTASG MVIHVLQVHK 60 ENVTKVPNSK EGRDSTDIEI YGMQGIPPDV LGAHYGEEEE ESPAKVAKVE IPSAPLGVAV 120 PRPYGMVYQP QQQVPGAVPA RPMYYPGPPM RPAGPGWPMP PPPRPQQWYP QNPPGTAPPP 180 PHLGYRPPQQ LFPVHGMGMN MPTSSPAPPG ILQPSSPAMP VSQPLFPVVN SIAPSQASPF 240 SAQQLPNANA TVGSADPYPP NNSFPVGGTN SHSYASGPNT SGPSIGPPPV IANKAPSSQP 300 NEVYLVWDDE AMSMEERRMS LPKYKVHDET SQMNSINAAI DRRISESRLA GRMAF

Sequence ? help Back to Top

Protein Sequence Length: 355 aa Download sequence Send to blast

MGKKKKRATE KVWCYYCDRE FDDEKILVQH QKAKHFKCHV CHKKLSTASG MVIHVLQVHK  60
ENVTKVPNSK EGRDSTDIEI YGMQGIPPDV LGAHYGEEEE ESPAKVAKVE IPSAPLGVAV  120
PRPYGMVYQP QQQVPGAVPA RPMYYPGPPM RPAGPGWPMP PPPRPQQWYP QNPPGTAPPP  180
PHLGYRPPQQ LFPVHGMGMN MPTSSPAPPG ILQPSSPAMP VSQPLFPVVN SIAPSQASPF  240
SAQQLPNANA TVGSADPYPP NNSFPVGGTN SHSYASGPNT SGPSIGPPPV IANKAPSSQP  300
NEVYLVWDDE AMSMEERRMS LPKYKVHDET SQMNSINAAI DRRISESRLA GRMAF

Functional Description ? help Back to Top
Source	Description
UniProt	Sequence-specific DNA binding factor that recognizes the 5'-CCAAATTTTAAGTTT-3' sequence. Recruits the FRI-C complex to the FLC promoter. Required for FRI-mediated FLC activation, but has no effect on the expression of MAF1, MAF2, MAF3, MAF5, UFC and CO. Dispensable for the reactivation of FLC in early embryogenesis, but required to maintain high levels of FLC expression in later embryonic and vegetative development. {ECO:0000269\|PubMed:17079264, ECO:0000269\|PubMed:17138694, ECO:0000269\|PubMed:19121105, ECO:0000269\|PubMed:21282526}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not regulated by photoperiod or vernalization. {ECO:0000269\|PubMed:17079264, ECO:0000269\|PubMed:17138694}.

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	AK353116	0.0	AK353116.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-21-B03.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018458994.1	0.0	PREDICTED: protein SUPPRESSOR OF FRI 4
Swissprot	Q9C5G0	0.0	SUF4_ARATH; Protein SUPPRESSOR OF FRI 4
TrEMBL	A0A397XXH5	0.0	A0A397XXH5_BRACM; Uncharacterized protein
STRING	Cagra.1508s0093.1.p	0.0	(Capsella grandiflora)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7695	17	20

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G30970.1	3e-85	C2H2 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] Resentini F, et al. SUPPRESSOR OF FRIGIDA (SUF4) Supports Gamete Fusion via Regulating Arabidopsis EC1 Gene Expression. Plant Physiol., 2017. 173(1): p. 155-166 [PMID:27920160]