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

Csa06g024700.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 451aa MW: 48002.4 Da PI: 10.0289

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa06g024700.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.4	1.2e-05	60	82	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Csa06g024700.1 60 FVCEICNKGFQRDQNLQLHRRGH 82 89*******************88 PP
2	zf-C2H2	11.4	0.00099	136	158	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H + + Csa06g024700.1 136 WKCDKCSKKYAVQSDWKAHSKIC 158 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.4E-5	59	82	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.82E-7	59	82	No hit	No description
PROSITE profile	PS50157	10.949	60	82	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	60	82	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	7.0E-5	60	82	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	62	82	IPR007087	Zinc finger, C2H2
SMART	SM00355	280	101	131	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	7.0E-4	124	157	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.82E-7	131	156	No hit	No description
SMART	SM00355	150	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: 451 aa Download sequence Send to blast
DLDNSSTVSG EASVSISSTG NQNPLINSTG KKKRNLPGMP DPESEVIALS PKTLLATNRF 60 VCEICNKGFQ RDQNLQLHRR GHNLPWKLRQ KSSKEVRKKV YVCPEVSCVH HEPSRALGDL 120 TGIKKHFCRK HGEKKWKCDK CSKKYAVQSD WKAHSKICGT KEYKCDCGTL FSRRDSFITH 180 RAFCDALAEE SARSNNHSQS KKQSPEISTR KKPVRDPIPA PVDTESAKVK SSSTLTIKQS 240 ESPKPPPDIV QEVPKPTGLN VTRNGVFAGL FESSTASPSI YTTSSSSKSL FAPSSSIEPT 300 SLGLSTGHGS SFLGLNRFQA QPAMSATALL QKAAQLGAAS SGGSLLRGLG IISSSSSSMD 360 AIVPHGLGLG LPCGGESSSG LKELMMWNSS VFCPKQTTLD FLGLGRAVGN GNGPINGLSA 420 LVGGSSGIDM ATAFESGEFS SGKDISRRKS *

Sequence ? help Back to Top

Protein Sequence Length: 451 aa Download sequence Send to blast

DLDNSSTVSG EASVSISSTG NQNPLINSTG KKKRNLPGMP DPESEVIALS PKTLLATNRF  60
VCEICNKGFQ RDQNLQLHRR GHNLPWKLRQ KSSKEVRKKV YVCPEVSCVH HEPSRALGDL  120
TGIKKHFCRK HGEKKWKCDK CSKKYAVQSD WKAHSKICGT KEYKCDCGTL FSRRDSFITH  180
RAFCDALAEE SARSNNHSQS KKQSPEISTR KKPVRDPIPA PVDTESAKVK SSSTLTIKQS  240
ESPKPPPDIV QEVPKPTGLN VTRNGVFAGL FESSTASPSI YTTSSSSKSL FAPSSSIEPT  300
SLGLSTGHGS SFLGLNRFQA QPAMSATALL QKAAQLGAAS SGGSLLRGLG IISSSSSSMD  360
AIVPHGLGLG LPCGGESSSG LKELMMWNSS VFCPKQTTLD FLGLGRAVGN GNGPINGLSA  420
LVGGSSGIDM ATAFESGEFS SGKDISRRKS *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-35	132	197	3	72	Zinc finger protein JACKDAW
5b3h_F	6e-35	132	197	3	72	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	86	98	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	Csa06g024700.1

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	AK226933	0.0	AK226933.1 Arabidopsis thaliana mRNA for zinc finger protein, complete cds, clone: RAFL09-26-M08.
GenBank	BT014947	0.0	BT014947.1 Arabidopsis thaliana At3g50700 gene, complete cds.
GenBank	BT015836	0.0	BT015836.1 Arabidopsis thaliana At3g50700 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019102321.1	0.0	PREDICTED: protein indeterminate-domain 2-like isoform X1
Swissprot	Q9SCQ6	0.0	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	R0HJI7	0.0	R0HJI7_9BRAS; Uncharacterized protein
STRING	XP_010426610.1	0.0	(Camelina sativa)

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]