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

Rsa1.0_00261.1_g00005.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 544aa MW: 56687.3 Da PI: 8.9823

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00261.1_g00005.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.1	1.6e-05	59	81	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Rsa1.0_00261.1_g00005.1 59 FVCEICNKGFQRDQNLQLHRRGH 81 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.8E-5	58	81	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.58E-7	58	81	No hit	No description
PROSITE profile	PS50157	10.949	59	81	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	59	81	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	61	81	IPR007087	Zinc finger, C2H2
SMART	SM00355	230	101	131	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	3.58E-7	131	156	No hit	No description
SMART	SM00355	88	136	156	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: 544 aa Download sequence Send to blast
MAPVELENSS TVSGDASGVS STGNLNPPPK KKRNLPGMPD PGAEVIALSP KTLMATNRFV 60 CEICNKGFQR DQNLQLHRRG HNLPWKLRQR SAKDAVRKKV YVCPVSACVH HDPSRALGDL 120 TGIKKHFCRK HGEKKYKCDK CSKKYAVHSD WKAHSKICGT KEYRCDCGTL FSRKDSFITH 180 RAFCDVLAEE SAKNQTNKLY PQPELKSPPA AAAPLTPPNV SAETEPVKIA SPSVRSSSES 240 PNPLEVIMEE APRTIGFNVS SSVISDDDRS GNNNCTPRTI GFNVTSSGLS GDHTSNNNNN 300 NGIYAGLFSS STSSPSLYAS STPSTSLFAP PSSSMEPISL CLSTNPSLYV GPTTIQDPHP 360 PPHFLTPLSL PPPQPAMSAT ALLQKAAQMG STGSGGSLLR GLGIVSSTSS SMELSSHDLG 420 LGLLPPCSSG GSGGSGLKEL MMGNSCVFGP KQTTLDFLGL GRAVGNGSSN PVGGGLSALL 480 TSIGGGGGMD VFGTAGEFPG KDIGRMKAAA AAPLVLILII KSIGVAGGVG GWAEAGVNAG 540 LFSR

Sequence ? help Back to Top

Protein Sequence Length: 544 aa Download sequence Send to blast

MAPVELENSS TVSGDASGVS STGNLNPPPK KKRNLPGMPD PGAEVIALSP KTLMATNRFV  60
CEICNKGFQR DQNLQLHRRG HNLPWKLRQR SAKDAVRKKV YVCPVSACVH HDPSRALGDL  120
TGIKKHFCRK HGEKKYKCDK CSKKYAVHSD WKAHSKICGT KEYRCDCGTL FSRKDSFITH  180
RAFCDVLAEE SAKNQTNKLY PQPELKSPPA AAAPLTPPNV SAETEPVKIA SPSVRSSSES  240
PNPLEVIMEE APRTIGFNVS SSVISDDDRS GNNNCTPRTI GFNVTSSGLS GDHTSNNNNN  300
NGIYAGLFSS STSSPSLYAS STPSTSLFAP PSSSMEPISL CLSTNPSLYV GPTTIQDPHP  360
PPHFLTPLSL PPPQPAMSAT ALLQKAAQMG STGSGGSLLR GLGIVSSTSS SMELSSHDLG  420
LGLLPPCSSG GSGGSGLKEL MMGNSCVFGP KQTTLDFLGL GRAVGNGSSN PVGGGLSALL  480
TSIGGGGGMD VFGTAGEFPG KDIGRMKAAA AAPLVLILII KSIGVAGGVG GWAEAGVNAG  540
LFSR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-32	132	193	3	64	Zinc finger protein JACKDAW
5b3h_F	4e-32	132	193	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	85	98	KLRQRSAKDAVRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269\|PubMed:21571950, ECO:0000269\|PubMed:25035403}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00261.1_g00005.1

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_018459862.1	0.0	PREDICTED: protein indeterminate-domain 1-like
Swissprot	Q9LVQ7	0.0	IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBL	A0A078JJR8	0.0	A0A078JJR8_BRANA; BnaCnng53120D protein
STRING	Cagra.2007s0026.1.p	0.0	(Capsella grandiflora)

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
AT5G66730.1	1e-162	C2H2-like zinc finger protein

Publications ? help Back to Top
Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]