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

Thecc1EG011146t1

Common Name

TCM_011146

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: 590aa MW: 63720.1 Da PI: 9.6769

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG011146t1	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	71	93	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Thecc1EG011146t1 71 FICEVCNKGFQREQNLQLHRRGH 93 89*******************88 PP
2	zf-C2H2	13.1	0.00028	147	169	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Thecc1EG011146t1 147 WKCEKCSKRYAVQSDWKAHSKTC 169 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.55E-7	70	93	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.6E-6	70	93	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.99	71	93	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	71	93	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	2.9E-5	71	93	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	73	93	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	112	142	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.1E-5	135	168	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.55E-7	142	167	No hit	No description
SMART	SM00355	130	147	167	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: 590 aa Download sequence Send to blast
MAASSSSGPF FGIRDEDQNQ MKQQPSSTPT SSTGPAPAPP QKKKRNQPGT PNPDAEVIAL 60 SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLR QKTTKEVKRK VYLCPEPTCV 120 HHDPSRALGD LTGIKKHYSR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYRCDCGT 180 LFSRRDSFIT HRAFCDALAQ ESARHPPSLN PIGNHLYGSS NMSLGLSQVG TQISSIQDQN 240 NQTGDILRLG GGARNTQFDH LLPPSMGSSS SFRPQQSMVS SAAFFMQESN QNFNQEHQPQ 300 QGLLGNKSFQ GLMQFPDIQN NTSNSPSAAN LFNLSFLSNS SNTSSINNNN SANTDNNLSS 360 SGLLISDHFN NENGAGGTSE ASNLFSNNIM GDQITSNIPS LFSSSVQNNN MVPQMSATAL 420 LQKAAQMGSN SSNNSTSLLR SFGSSSSSGT KPSNFGGIVG DNTGNNLHEL MNSIASGSSS 480 IFGGGSPGVN TYSTGHGQEN PYTNRSSMEQ EKQQQNLNVS AGGSDRLTRD FLGVGQIVRS 540 MSGGVSQREQ QQQQQQQQQG MGLSTLGSER NNITAPTGHR SFGGGGNFQ*

Sequence ? help Back to Top

Protein Sequence Length: 590 aa Download sequence Send to blast

MAASSSSGPF FGIRDEDQNQ MKQQPSSTPT SSTGPAPAPP QKKKRNQPGT PNPDAEVIAL  60
SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLR QKTTKEVKRK VYLCPEPTCV  120
HHDPSRALGD LTGIKKHYSR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYRCDCGT  180
LFSRRDSFIT HRAFCDALAQ ESARHPPSLN PIGNHLYGSS NMSLGLSQVG TQISSIQDQN  240
NQTGDILRLG GGARNTQFDH LLPPSMGSSS SFRPQQSMVS SAAFFMQESN QNFNQEHQPQ  300
QGLLGNKSFQ GLMQFPDIQN NTSNSPSAAN LFNLSFLSNS SNTSSINNNN SANTDNNLSS  360
SGLLISDHFN NENGAGGTSE ASNLFSNNIM GDQITSNIPS LFSSSVQNNN MVPQMSATAL  420
LQKAAQMGSN SSNNSTSLLR SFGSSSSSGT KPSNFGGIVG DNTGNNLHEL MNSIASGSSS  480
IFGGGSPGVN TYSTGHGQEN PYTNRSSMEQ EKQQQNLNVS AGGSDRLTRD FLGVGQIVRS  540
MSGGVSQREQ QQQQQQQQQG MGLSTLGSER NNITAPTGHR SFGGGGNFQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-34	143	204	3	64	Zinc finger protein JACKDAW
5b3h_F	3e-34	143	204	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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00255	DAP	Transfer from AT2G02070	Download

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC208494	1e-136	AC208494.1 Populus trichocarpa clone JGIACSB265-L05, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_017971628.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic isoform X1
Swissprot	Q9ZUL3	1e-158	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A061EG12	0.0	A0A061EG12_THECC; Indeterminate(ID)-domain 5, putative isoform 1
STRING	EOY01204	0.0	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4373	26	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-142	indeterminate(ID)-domain 5

Link Out ? help Back to Top
Phytozome	Thecc1EG011146t1
Entrez Gene	18609937

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]