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

RrC7811_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: 152aa MW: 18202.8 Da PI: 9.6413

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC7811_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	18.6	5.1e-06	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H RrC7811_p1 6 FICEVCNKGFQREQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	11.9	0.00069	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C++++ s++k H + + RrC7811_p1 82 FKCDKCPRCYAVESDYKAHSKIC 104 89*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	2.0E-6	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	6.5E-6	6	28	IPR022755	Zinc finger, double-stranded RNA binding
SuperFamily	SSF57667	1.47E-8	6	28	No hit	No description
PROSITE profile	PS50157	10.99	6	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	64	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.9E-4	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.47E-8	77	102	No hit	No description
SMART	SM00355	99	82	102	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: 152 aa Download sequence Send to blast
MATYRFICEV CNKGFQREQN LQLHRRGHGL SYTLKQNSDE EVRRKVYVCP EPTCVYHDPS 60 RALGDLTGIK KHYSRKHGEK KFKCDKCPRC YAVESDYKAH SKICGTKEYR CVCASKKPYR 120 ELYGNGSSRW WKWWQTWLLR RCYSCSHSQP FW

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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). {ECO:0000269\|PubMed:24821766, ECO:0000305\|PubMed:19726569}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

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	AC189499	1e-117	AC189499.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB086M23, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018488197.1	1e-78	PREDICTED: LOW QUALITY PROTEIN: protein indeterminate-domain 6, chloroplastic
Swissprot	Q8GYC1	2e-66	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	M4EBP4	3e-67	M4EBP4_BRARP; Uncharacterized protein
STRING	Bra026203.1-P	5e-68	(Brassica rapa)
STRING	Bo5g019790.1	3e-66	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM155	28	306

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.1	7e-69	indeterminate(ID)-domain 4

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]