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

Csa18g009620.1

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: 469aa MW: 51271.3 Da PI: 8.2262

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa18g009620.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.7	4.2e-05	68	88	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++Cgk F r nL+ H r H Csa18g009620.1 68 CEICGKGFQRDQNLQLHRRGH 88 *******************88 PP
2	zf-C2H2	11.5	0.00091	172	190	5	23
TTTEEESSHHHHHHHHHHT CS zf-C2H2 5 dCgksFsrksnLkrHirtH 23 dCg++Fsr++++ +H + Csa18g009620.1 172 DCGTVFSRRDSFITHRAFC 190 9**************8765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.93E-5	65	88	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.0E-5	65	88	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	11.489	66	88	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	68	88	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.93E-5	137	162	No hit	No description

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: 469 aa Download sequence Send to blast
MTTSEVLQTI SRGSGFAQSS STTLDHDESL INPPLVKKKR NLPGNPDPEA EVIALSPKTL 60 MATNRFLCEI CGKGFQRDQN LQLHRRGHNL PWKLKQRTSK EVKKRVYVCP EKTCVHHHSS 120 RALGDLTGIK KHFCRKHGEK KWKCDKCAKR YAVQSDCKAH SKTCGTREYR CDCGTVFSRR 180 DSFITHRAFC DALAEETAKI NAASHLNGLA AAGAAGPLNL NYQYLMGTLI PPLQPFVPLP 240 QTNQNHHHQH FQPPPASSSS LSLWMGQDMA PPQPQPQDYD WVFGNAKAAA SECIDNNNNH 300 DELITQTANA SSTTTTTLSV PSLFSNDQSQ NANVNGNANM SATALLQKAA EIGASSTTTA 360 ATNDPSTYLH SFPLKSSDQT TTYDTGEKFF ALFGSNNNIG LMSHSLDQET ENARNDVTVA 420 SAMDELQNYP WKRRRVDGGG EGGGGQTRDF LGVGVQTLCH PSSINGWI*

Sequence ? help Back to Top

Protein Sequence Length: 469 aa Download sequence Send to blast

MTTSEVLQTI SRGSGFAQSS STTLDHDESL INPPLVKKKR NLPGNPDPEA EVIALSPKTL  60
MATNRFLCEI CGKGFQRDQN LQLHRRGHNL PWKLKQRTSK EVKKRVYVCP EKTCVHHHSS  120
RALGDLTGIK KHFCRKHGEK KWKCDKCAKR YAVQSDCKAH SKTCGTREYR CDCGTVFSRR  180
DSFITHRAFC DALAEETAKI NAASHLNGLA AAGAAGPLNL NYQYLMGTLI PPLQPFVPLP  240
QTNQNHHHQH FQPPPASSSS LSLWMGQDMA PPQPQPQDYD WVFGNAKAAA SECIDNNNNH  300
DELITQTANA SSTTTTTLSV PSLFSNDQSQ NANVNGNANM SATALLQKAA EIGASSTTTA  360
ATNDPSTYLH SFPLKSSDQT TTYDTGEKFF ALFGSNNNIG LMSHSLDQET ENARNDVTVA  420
SAMDELQNYP WKRRRVDGGG EGGGGQTRDF LGVGVQTLCH PSSINGWI*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-32	138	207	3	72	Zinc finger protein JACKDAW
5b3h_F	3e-32	138	207	3	72	Zinc finger protein JACKDAW
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	431	435	KRRRV

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269\|PubMed:21265895, ECO:0000269\|PubMed:25829440, ECO:0000269\|PubMed:25929516}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa18g009620.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269\|PubMed:16640459}.

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	AY037202	0.0	AY037202.1 Arabidopsis thaliana AT5g44160/MLN1_8 mRNA, complete cds.
GenBank	BT002685	0.0	BT002685.1 Arabidopsis thaliana At5g44160/MLN1_8 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010481772.1	0.0	PREDICTED: zinc finger protein NUTCRACKER
Swissprot	Q9FFH3	0.0	IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBL	D7MN23	0.0	D7MN23_ARALL; Zinc finger family protein
STRING	XP_010481772.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3710	26	60

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G44160.1	0.0	C2H2-like zinc finger protein

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] Long Y, et al. In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots. Nature, 2017. 548(7665): p. 97-102 [PMID:28746306]