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

Thecc1EG041053t2

Common Name

TCM_041053

Organism

Theobroma cacao

Taxonomic ID

3641

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma

Family

C2H2

Protein Properties

Length: 467aa MW: 51321.6 Da PI: 9.8982

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG041053t2	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.3	2.8e-05	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H Thecc1EG041053t2 6 FICEICNKGFQRDQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	12	0.00065	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H + + Thecc1EG041053t2 82 WKCEKCSKKYAVQSDWKAHSKIC 104 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	1.2E-5	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.18E-7	5	28	No hit	No description
SMART	SM00355	0.022	6	28	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	5.5E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.845	6	28	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	120	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.4E-4	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.18E-7	77	102	No hit	No description
SMART	SM00355	140	82	102	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: 467 aa Download sequence Send to blast
MATNRFICEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTNK EVRKKVYICP EKTCVHHDRS 60 RALGDLTGIK KHFSRKHGEK KWKCEKCSKK YAVQSDWKAH SKICGTREYR CDCGTLFSRK 120 DSFITHRAFC DALAEESARF TSVSTTMIPA FRNDLINGAN SNAQATGMHQ FSSGFRPDFA 180 GPELVENLNA NGQKPRLQLW LDQANSQLNP IGIPSNANAF LATKSTSLPD LGIAPMTMFG 240 SLSQTQWLSK YPEASFPGAN LSVSALPRGL KEEEENKGNL SESITSLYSN NTRNSLQQGQ 300 AHMSATALLQ KAAQMGSTRS NPAFNNSGFG LVSSSPSTMS SSNTYDQSKN EVYKLVKQAN 360 QSENINELVS SLSSTRATIM KDGSALGDLN SSSFVNNATT KNMDNLVMQA NGKQGQAVVS 420 KLNTNSNEVE ASLTRDFLGV GGESSRPFLQ QELAKFASMG SVQPWS*

Sequence ? help Back to Top

Protein Sequence Length: 467 aa Download sequence Send to blast

MATNRFICEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTNK EVRKKVYICP EKTCVHHDRS  60
RALGDLTGIK KHFSRKHGEK KWKCEKCSKK YAVQSDWKAH SKICGTREYR CDCGTLFSRK  120
DSFITHRAFC DALAEESARF TSVSTTMIPA FRNDLINGAN SNAQATGMHQ FSSGFRPDFA  180
GPELVENLNA NGQKPRLQLW LDQANSQLNP IGIPSNANAF LATKSTSLPD LGIAPMTMFG  240
SLSQTQWLSK YPEASFPGAN LSVSALPRGL KEEEENKGNL SESITSLYSN NTRNSLQQGQ  300
AHMSATALLQ KAAQMGSTRS NPAFNNSGFG LVSSSPSTMS SSNTYDQSKN EVYKLVKQAN  360
QSENINELVS SLSSTRATIM KDGSALGDLN SSSFVNNATT KNMDNLVMQA NGKQGQAVVS  420
KLNTNSNEVE ASLTRDFLGV GGESSRPFLQ QELAKFASMG SVQPWS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-37	78	144	3	69	Zinc finger protein JACKDAW
5b3h_F	2e-37	78	144	3	69	Zinc finger protein JACKDAW
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	32	44	KLKQRTNKEVRKK

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}.

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	JX577569	1e-49	JX577569.1 Gossypium hirsutum clone NBRI_GE9421 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_017982921.1	0.0	PREDICTED: protein indeterminate-domain 9
Swissprot	Q944L3	1e-102	IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBL	A0A061GUF3	0.0	A0A061GUF3_THECC; Nucleic acid binding protein, putative isoform 1
STRING	EOY33048	0.0	(Theobroma cacao)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G45260.1	2e-92	C2H2-like zinc finger protein

Link Out ? help Back to Top
Phytozome	Thecc1EG041053t2
Entrez Gene	18590071

Publications ? help Back to Top
Motamayor JC, et al. The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color. Genome Biol., 2013. 14(6): p. r53 [PMID:23731509] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]