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

Csa09g039280.1

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: 389aa MW: 43454.5 Da PI: 9.7104

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa09g039280.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	20.1	1.8e-06	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F+r nL+ H r H Csa09g039280.1 6 FICEICNKGFKRDQNLQLHRRGH 28 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	5.95E-8	5	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.3E-6	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.866	6	28	IPR007087	Zinc finger, C2H2
Pfam	PF12171	1.4E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.011	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	97	48	78	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.5E-4	71	104	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.95E-8	78	103	No hit	No description
SMART	SM00355	200	83	103	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: 389 aa Download sequence Send to blast
MATNRFICEI CNKGFKRDQN LQLHRRGHNL PWKLKQRTNK DQIKKKVYIC PEKTCVHHDP 60 GRALGDLTGI KKHFSRKHGE KKWKCDKCSK KYAVMSDWKA HSKICGTREY RCDCGTLFSR 120 KDSFITHRAF CDALAEESAR FVSVPPAAAS ATPAYLHNAP DAEVNLGNIN ENHQHGHTTS 180 SQLDQPVFNN QRQTFLGQTF TDQLPIQPNV FASPSTRSAS DSLQNLWHLQ GQSSHQWLLN 240 ENNNNNILQR GISKNEEEHE IKKVATSGSL FSSEAHNNAN NYSQNGGQIA SMSATALLQK 300 AAQMGSKRSS SSLNNSKAFG LMSNTSIFNN KQTENMKTTE VDEGGFTRDF LGVGSQHRTW 360 PLLMVNRNLL DSSPPATTDG TPTPDRNQ*

Sequence ? help Back to Top

Protein Sequence Length: 389 aa Download sequence Send to blast

MATNRFICEI CNKGFKRDQN LQLHRRGHNL PWKLKQRTNK DQIKKKVYIC PEKTCVHHDP  60
GRALGDLTGI KKHFSRKHGE KKWKCDKCSK KYAVMSDWKA HSKICGTREY RCDCGTLFSR  120
KDSFITHRAF CDALAEESAR FVSVPPAAAS ATPAYLHNAP DAEVNLGNIN ENHQHGHTTS  180
SQLDQPVFNN QRQTFLGQTF TDQLPIQPNV FASPSTRSAS DSLQNLWHLQ GQSSHQWLLN  240
ENNNNNILQR GISKNEEEHE IKKVATSGSL FSSEAHNNAN NYSQNGGQIA SMSATALLQK  300
AAQMGSKRSS SSLNNSKAFG LMSNTSIFNN KQTENMKTTE VDEGGFTRDF LGVGSQHRTW  360
PLLMVNRNLL DSSPPATTDG TPTPDRNQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-35	79	144	3	68	Zinc finger protein JACKDAW
5b3h_F	3e-35	79	144	3	68	Zinc finger protein JACKDAW
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that, together with JKD, regulates tissue boundaries and asymmetric cell division in roots by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:25829440). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). 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:0000269\|PubMed:25829440}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa09g039280.1

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_010425952.1	0.0	PREDICTED: protein indeterminate-domain 9-like
Refseq	XP_010425953.1	0.0	PREDICTED: protein indeterminate-domain 9-like
Swissprot	Q944L3	0.0	IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBL	R0HJJ2	0.0	R0HJJ2_9BRAS; Uncharacterized protein
STRING	XP_010425952.1	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
AT3G45260.1	1e-174	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]