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

Csa06889s010.1

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: 119aa MW: 14022.4 Da PI: 10.4316

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa06889s010.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	22.3	3.3e-07	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F+r nL+ H r H Csa06889s010.1 6 FICEICNKGFKRDQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	12.4	0.00048	83	105	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + s+ k H + + Csa06889s010.1 83 WKCDKCSKKYAVMSDWKAHSKIC 105 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	5.57E-9	5	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	8.1E-7	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.866	6	28	IPR007087	Zinc finger, C2H2
Pfam	PF12171	2.6E-6	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	6.6E-5	71	104	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.57E-9	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: 119 aa Download sequence Send to blast
MATNRFICEI CNKGFKRDQN LQLHRRGHNL PWKLKQRTNK DQIKKKVYIC PEKTCVHHDP 60 GRALGDLTGI KKHFSRKHGE KKWKCDKCSK KYAVMSDWKA HSKICGTREY RCDCGTLFS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-20	79	119	3	43	Zinc finger protein JACKDAW
5b3h_F	2e-20	79	119	3	43	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	Csa06889s010.1

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	AF428302	1e-150	AF428302.1 Arabidopsis thaliana AT3g45260/F18N11_20 mRNA, complete cds.
GenBank	AJ621493	1e-150	AJ621493.1 Arabidopsis thaliana mRNA for ID1-like zinc finger protein 1 (idz1 gene).
GenBank	AL132953	1e-150	AL132953.2 Arabidopsis thaliana DNA chromosome 3, BAC clone F18N11.
GenBank	AY143936	1e-150	AY143936.1 Arabidopsis thaliana At3g45260/F18N11_20 mRNA, complete cds.
GenBank	CP002686	1e-150	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010425952.1	2e-85	PREDICTED: protein indeterminate-domain 9-like
Refseq	XP_010425953.1	2e-85	PREDICTED: protein indeterminate-domain 9-like
Refseq	XP_010503173.1	2e-85	PREDICTED: protein indeterminate-domain 9 isoform X1
Refseq	XP_019100169.1	2e-85	PREDICTED: protein indeterminate-domain 9 isoform X2
Swissprot	Q944L3	2e-82	IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBL	A0A4D8ZH05	3e-82	A0A4D8ZH05_SALSN; Uncharacterized protein
TrEMBL	E4MWC5	1e-81	E4MWC5_EUTHA; mRNA, clone: RTFL01-07-P14
TrEMBL	V4L1J5	1e-81	V4L1J5_EUTSA; Uncharacterized protein
STRING	XP_010425952.1	6e-85	(Camelina sativa)
STRING	XP_010503173.1	7e-85	(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	2e-73	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]