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

676759068

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 457aa MW: 48218.7 Da PI: 9.9878

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676759068	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.4	1.3e-05	59	81	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H 676759068 59 FVCEICNKGFQRDQNLQLHRRGH 81 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	5.81E-7	58	81	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.5E-5	58	81	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.017	59	81	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	7.1E-5	59	81	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.949	59	81	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	61	81	IPR007087	Zinc finger, C2H2
SMART	SM00355	250	100	130	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	5.81E-7	130	155	No hit	No description
SMART	SM00355	190	135	155	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: 457 aa Download sequence Send to blast
MPVDLDNSST VSGEASVSST GNQLQKSAGK KKRNLPGMPD PDSEVIALSP KTLLATNRFV 60 CEICNKGFQR DQNLQLHRRG HNLPWKLRQK SSKEVRKKVY VCPEITCVHH DPSRALGDLT 120 GIKKHFCRKH GEKKWKCDKC SKKYAVVSDW KAHSKICGTK EYKCDCGTLF SRRDSFITHR 180 AFCDALAEES ARNHSKKQNP EVLTRKKPVP DPNSLPTSPN HSAPSSAAPV ETHSAITKSP 240 PAITVKRSES PKTPPEILQE APKPTAGLNV TRNGVFAGLF ESSSASPSIY ASSSSSCSQS 300 LFAPSSSIEP ISLGLSTSHG SSFLCSTRFP AQPAMSATAL LQRAAQMGAA SSGGSLLRGL 360 GIVSSSSPSM DSIVPHGLAL GLPCGGESSS GLKELMMGNS SVFGPKQTTL DFLGLGRAVG 420 NGGGGPGNGL SALVGRSRSI DVAATFGSGE FSGKDIG

Sequence ? help Back to Top

Protein Sequence Length: 457 aa Download sequence Send to blast

MPVDLDNSST VSGEASVSST GNQLQKSAGK KKRNLPGMPD PDSEVIALSP KTLLATNRFV  60
CEICNKGFQR DQNLQLHRRG HNLPWKLRQK SSKEVRKKVY VCPEITCVHH DPSRALGDLT  120
GIKKHFCRKH GEKKWKCDKC SKKYAVVSDW KAHSKICGTK EYKCDCGTLF SRRDSFITHR  180
AFCDALAEES ARNHSKKQNP EVLTRKKPVP DPNSLPTSPN HSAPSSAAPV ETHSAITKSP  240
PAITVKRSES PKTPPEILQE APKPTAGLNV TRNGVFAGLF ESSSASPSIY ASSSSSCSQS  300
LFAPSSSIEP ISLGLSTSHG SSFLCSTRFP AQPAMSATAL LQRAAQMGAA SSGGSLLRGL  360
GIVSSSSPSM DSIVPHGLAL GLPCGGESSS GLKELMMGNS SVFGPKQTTL DFLGLGRAVG  420
NGGGGPGNGL SALVGRSRSI DVAATFGSGE FSGKDIG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	7e-34	131	192	3	64	Zinc finger protein JACKDAW
5b3h_F	7e-34	131	192	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	85	97	KLRQKSSKEVRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269\|PubMed:25035403}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00403	DAP	Transfer from AT3G50700	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676759068

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK353210	0.0	AK353210.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-27-D18.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013697426.1	0.0	protein indeterminate-domain 2
Swissprot	Q9SCQ6	0.0	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A078GDB0	0.0	A0A078GDB0_BRANA; BnaC05g34640D protein
STRING	Bo8g080100.1	0.0	(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
AT3G50700.1	0.0	indeterminate(ID)-domain 2

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] Khare D, et al. Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana. New Phytol., 2017. 213(3): p. 1257-1273 [PMID:27768815]