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

Thhalv10002526m

Common Name

EUTSA_v10002526mg

Organism

Eutrema salsugineum

Taxonomic ID

72664

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 450aa MW: 50214.2 Da PI: 10.0904

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thhalv10002526m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	19.8	2.1e-06	68	90	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F+r nL+ H r H Thhalv10002526m 68 FICEICNKGFKRDQNLQLHRRGH 90 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	5.2E-6	67	90	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.11E-7	67	90	No hit	No description
PROSITE profile	PS50157	10.866	68	90	IPR007087	Zinc finger, C2H2
Pfam	PF12171	1.6E-5	68	90	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.011	68	90	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	70	90	IPR007087	Zinc finger, C2H2
SMART	SM00355	120	110	140	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.3E-4	133	166	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.11E-7	140	165	No hit	No description
SMART	SM00355	200	145	165	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 450 aa Download sequence Send to blast
MMMPDDHHHL SVPSYVLNQE HITPNPNPNH NTATSNSTKK KRNLPGNPDP DAEVIALSPN 60 SLMATNRFIC EICNKGFKRD QNLQLHRRGH NLPWKLKQRT NKEQVKKKVY ICPEKSCVHH 120 DPARALGDLT GIKKHFSRKH GEKKWKCDKC SKKYAVMSDW KAHSKICGTR EYRCDCGTLF 180 SRKDSFITHR AFCDALAEES ARLVSTPAPA PAPAYLNNAP DMEVNLGNMN ANPQNRQLNT 240 TSSQLDQHGF NTNRNNINAF LGQTFTNQLP LPTNVFASSS SLSPRSASES LQNLWHVQGQ 300 SSHQWLVNEN NNNNILQRGI SKNQEEHETK KGISNGSLFS SESRNSYTPN GGQVMASMSA 360 TALLQKAAQM GSKRTSSSSD NSTAFGLMTS SIFNIKQTES NVKAKEVDER GFTRDFLGVG 420 SQHRPWQLLM ANHNHRESSP PARTNGMNQ*

Sequence ? help Back to Top

Protein Sequence Length: 450 aa Download sequence Send to blast

MMMPDDHHHL SVPSYVLNQE HITPNPNPNH NTATSNSTKK KRNLPGNPDP DAEVIALSPN  60
SLMATNRFIC EICNKGFKRD QNLQLHRRGH NLPWKLKQRT NKEQVKKKVY ICPEKSCVHH  120
DPARALGDLT GIKKHFSRKH GEKKWKCDKC SKKYAVMSDW KAHSKICGTR EYRCDCGTLF  180
SRKDSFITHR AFCDALAEES ARLVSTPAPA PAPAYLNNAP DMEVNLGNMN ANPQNRQLNT  240
TSSQLDQHGF NTNRNNINAF LGQTFTNQLP LPTNVFASSS SLSPRSASES LQNLWHVQGQ  300
SSHQWLVNEN NNNNILQRGI SKNQEEHETK KGISNGSLFS SESRNSYTPN GGQVMASMSA  360
TALLQKAAQM GSKRTSSSSD NSTAFGLMTS SIFNIKQTES NVKAKEVDER GFTRDFLGVG  420
SQHRPWQLLM ANHNHRESSP PARTNGMNQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-35	141	205	3	67	Zinc finger protein JACKDAW
5b3h_F	1e-35	141	205	3	67	Zinc finger protein JACKDAW
Search in ModeBase

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	Thhalv10002526m

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	AK352822	0.0	AK352822.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-07-P14.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006419053.1	0.0	protein indeterminate-domain 9
Swissprot	Q944L3	0.0	IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBL	E4MWC5	0.0	E4MWC5_EUTHA; mRNA, clone: RTFL01-07-P14
TrEMBL	V4L1J5	0.0	V4L1J5_EUTSA; Uncharacterized protein
STRING	XP_006419053.1	0.0	(Eutrema salsugineum)

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	0.0	C2H2-like zinc finger protein

Link Out ? help Back to Top
Phytozome	Thhalv10002526m
Entrez Gene	18014106

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]