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

Thecc1EG011145t6

Common Name

TCM_011145

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: 579aa MW: 62092.2 Da PI: 8.748

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG011145t6	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.2	3e-05	55	77	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Thecc1EG011145t6 55 FICEVCNKGFQREQNLQLHRRGH 77 89*******************88 PP
2	zf-C2H2	13.1	0.00028	131	153	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Thecc1EG011145t6 131 WKCEKCSKRYAVQSDWKAHSKTC 153 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.61E-7	54	77	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.4E-6	54	77	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	2.8E-5	55	77	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.99	55	77	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	55	77	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	57	77	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	96	126	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.1E-5	119	152	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.61E-7	126	151	No hit	No description
SMART	SM00355	130	131	151	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: 579 aa Download sequence Send to blast
MVSSFSPSQL SLGFYFVSPP IFLIIFRLAL FLDEADPDAE VIALSPKTLM ATNRFICEVC 60 NKGFQREQNL QLHRRGHNLP WKLRQKTTKE VKRKVYLCPE PTCVHHDPSR ALGDLTGIKK 120 HYSRKHGEKK WKCEKCSKRY AVQSDWKAHS KTCGTREYRC DCGTLFSRRD SFITHRAFCD 180 ALAQESARHP TNLSTMGSHL FGSNHMSLGL SQVGSQIPSL QDQNQPPSNM LRLGSAGAAK 240 FEHLIPPSNP SPLQNMPTSA FFMPDANQGF HHQDHQSHHG HGPFLNKPLH GLMQLPDLQG 300 NTNNTPASTN LFNLGFFPNN SAASSISTSE NASASTANLP NSGFLSPNQF NSGNGGGGGQ 360 GTAMFSTNMG DQVGSGLSSL YSTSMQHENI SPHMSATALL QKAAQMGSTT SNNTSSLLRG 420 LGSSSASGSK SDRPVLSANF GSNYGGGGGE TLRSQMENDS NLQGLMNSLA NGNSSIFGAG 480 HGQDSNFGGF SGSGMTLDQQ SNNANFCNVN EAKLHQNLAA SIGGTDKLTL DFLGVGGMVR 540 NMGGGFSQRE QHGINISSLD PEVKSAQANQ QFGSAKLL*

Sequence ? help Back to Top

Protein Sequence Length: 579 aa Download sequence Send to blast

MVSSFSPSQL SLGFYFVSPP IFLIIFRLAL FLDEADPDAE VIALSPKTLM ATNRFICEVC  60
NKGFQREQNL QLHRRGHNLP WKLRQKTTKE VKRKVYLCPE PTCVHHDPSR ALGDLTGIKK  120
HYSRKHGEKK WKCEKCSKRY AVQSDWKAHS KTCGTREYRC DCGTLFSRRD SFITHRAFCD  180
ALAQESARHP TNLSTMGSHL FGSNHMSLGL SQVGSQIPSL QDQNQPPSNM LRLGSAGAAK  240
FEHLIPPSNP SPLQNMPTSA FFMPDANQGF HHQDHQSHHG HGPFLNKPLH GLMQLPDLQG  300
NTNNTPASTN LFNLGFFPNN SAASSISTSE NASASTANLP NSGFLSPNQF NSGNGGGGGQ  360
GTAMFSTNMG DQVGSGLSSL YSTSMQHENI SPHMSATALL QKAAQMGSTT SNNTSSLLRG  420
LGSSSASGSK SDRPVLSANF GSNYGGGGGE TLRSQMENDS NLQGLMNSLA NGNSSIFGAG  480
HGQDSNFGGF SGSGMTLDQQ SNNANFCNVN EAKLHQNLAA SIGGTDKLTL DFLGVGGMVR  540
NMGGGFSQRE QHGINISSLD PEVKSAQANQ QFGSAKLL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-35	127	188	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-35	127	188	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269\|PubMed:24821766}.

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	AC208494	1e-142	AC208494.1 Populus trichocarpa clone JGIACSB265-L05, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007045367.2	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic isoform X1
Refseq	XP_007045368.2	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic isoform X1
Refseq	XP_007045369.2	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic isoform X1
Refseq	XP_007045370.2	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic isoform X1
Swissprot	Q9ZUL3	1e-134	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A061E9C8	0.0	A0A061E9C8_THECC; Indeterminate(ID)-domain 5, putative isoform 6
STRING	EOY01198	0.0	(Theobroma cacao)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-126	indeterminate(ID)-domain 5

Link Out ? help Back to Top
Phytozome	Thecc1EG011145t6
Entrez Gene	18609936

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]