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

Thecc1EG043183t1

Common Name

TCM_043183

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: 1581aa MW: 175713 Da PI: 6.7994

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG043183t1	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	11.6	0.00085	1465	1490	1	23
EEET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt.H 23 ++C C++sF +k++L+ H r+ + Thecc1EG043183t1 1465 HRCDmeGCHMSFETKEELRLHKRNrC 1490 789999****************9877 PP
2	zf-C2H2	10.9	0.0015	1489	1512	2	23
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +Cp Cgk+F+++ + H+r+H Thecc1EG043183t1 1489 RCPyeGCGKRFRSHKYAILHQRVH 1512 69999*****************99 PP
3	zf-C2H2	11.4	0.00097	1548	1574	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 ykC+ Cg sF+ s++ rH r+ H Thecc1EG043183t1 1548 YKCKvvGCGLSFRFVSDFSRHRRKtgH 1574 9**********************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00545	4.9E-14	15	55	IPR003349	JmjN domain
PROSITE profile	PS51183	14.007	16	57	IPR003349	JmjN domain
Pfam	PF02375	1.6E-15	17	50	IPR003349	JmjN domain
SuperFamily	SSF51197	2.75E-26	231	238	No hit	No description
SuperFamily	SSF51197	2.75E-26	287	457	No hit	No description
PROSITE profile	PS51184	33.728	290	459	IPR003347	JmjC domain
SMART	SM00558	9.2E-44	290	459	IPR003347	JmjC domain
Pfam	PF02373	8.1E-35	323	442	IPR003347	JmjC domain
SMART	SM00355	9.8	1465	1487	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.905	1488	1517	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.03	1488	1512	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	5.87E-6	1488	1525	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.0E-5	1489	1516	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	1490	1512	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	7.89E-10	1517	1570	No hit	No description
Gene3D	G3DSA:3.30.160.60	9.4E-10	1517	1542	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0014	1518	1542	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.863	1518	1547	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1520	1542	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	2.2E-10	1543	1571	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	9.66	1548	1579	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.29	1548	1574	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	1550	1574	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009741	Biological Process	response to brassinosteroid
GO:0009826	Biological Process	unidimensional cell growth
GO:0033169	Biological Process	histone H3-K9 demethylation
GO:0048577	Biological Process	negative regulation of short-day photoperiodism, flowering
GO:0048579	Biological Process	negative regulation of long-day photoperiodism, flowering
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: 1581 aa Download sequence Send to blast
MGNVEIPNWL QGLPLAPEFR PTDTEFADPI AYISKIEKEA AAYGICKIIP PLPKPSKKYV 60 FNNLNRSLSK CPELGSDMDV SKNVGSISSC RDSRGEEGEG RAVFTTRHQE LGQSGKKMKV 120 AVSSPQCGVH KQVWQSGEIY TLEQFESKSK TFAKSLLGVL KEVSPLHIEA LFWKVASEKP 180 INVEYANDVP GSGFGEPEGQ FRYFHRRRRR RKRMSYRREN ADCKKDEMNT VHNSHIDEIK 240 DTCVKSDQNA WFETPKISTT SSTLASDENS LSKRKSGNAS NDMEGTAGWK LSNSPWNLQV 300 IARSAGSLTR FMPDDIPGVT SPMVYIGMLL SWFAWHVEDH ELHSMNFLHT GSSKTWYAVP 360 GDYAYAFEEV IRTEAYGGNI DRLAALSLLG EKTTLLSPEL IVASGIPCCR LIQNPGEFVV 420 TFPRAYHVGF SHGFNCGEAA NFGTPQWLQV AKEAAVRRAA MNYLPMLSHQ QLLYLLTMSF 480 VSRVPRSLLP GARSSRLRDR QKEERELLVK KAFIEDMLTE NKLLSLLLKR GSTYRAIIWD 540 PDLLPYASKD SELPSETAAV STVLQENVSD IHSKNNTNQN NLLDEMSLYM ENLNYLYLND 600 DDLSCDFQVD SGTLACVACG ILGYPFMSVV QPSEGTLELL PADHLSVLGS AVLESKNTHS 660 CPDLDHPVEC SVSDNVHHVA DQSLPSKDAT SPSITKFCHV WDTSNIYMRP RIFCLEHAVQ 720 VEEILQSKGG AKMLVICHSD YQKIKAHAIP VAEDIGITFN YNDVPLDAAS QEDLNLINLA 780 IDDEHDEIGE DWTSKLGVNL RYCVKVRKNS PFKQVQHALP LGGLFSDKYG SPELFNIKWQ 840 SRKSRSKGKL SHPSSKPCES VELKVGELLL EKLDGNIPKS EQKIIQYSRR KKRKPDYSTG 900 AGGCLELVKD DLPREDSAAT CELPDEHGGS KSKINAKSDS SVLFSSLSTR ASQTQPEIQT 960 TSVVGVVQKD HGKILQESNL NGEGCSLAAC ASSQKQCEIK LMERTSENNE LSLADKCSKF 1020 SVFAAGERFK ESTGAICEVC NPVYEGQCEE LAARHDLINL ANSANSLSAQ PSAGRFDPVL 1080 EDLIVEKSCM NGGVHSCMTS DNEVQQEIEA TSRNNNEDIL CDNKLINKPN LGPEDFSSGV 1140 SLGDEAQQET NTRGGSQVEP FFSSPTLTKG PSTVMVGNRS DVPREPCTAA DLCDVAISKD 1200 KAKKQEIQID ASKEGLLCGS ITPMVIDQRT SLSVEEYSVV SKNPCANELH TGVISDVEVL 1260 QEIQATKGTS GDEVIYCYHL PIKEKQPTPT VMEACSKVQR MCSSEKKSCA DATADDDRHE 1320 NDLIRNEKDE EEPVSCCVIP INQATPVPIQ RYSRTRRESR ATVNVNNGEV CSFVENRDLE 1380 SAVVNCRSSA TDGRKRKREV VEKPEKVGGS GFIRSPCEGL RPRARKDASS SFDVGKTSQE 1440 VLPTKETRKP SIHTQSKKII KKGSHRCDME GCHMSFETKE ELRLHKRNRC PYEGCGKRFR 1500 SHKYAILHQR VHEDDRPLKC PWKGCSMTFK WAWARTEHIR VHTGERPYKC KVVGCGLSFR 1560 FVSDFSRHRR KTGHYVDSSA *

Sequence ? help Back to Top

Protein Sequence Length: 1581 aa Download sequence Send to blast

MGNVEIPNWL QGLPLAPEFR PTDTEFADPI AYISKIEKEA AAYGICKIIP PLPKPSKKYV  60
FNNLNRSLSK CPELGSDMDV SKNVGSISSC RDSRGEEGEG RAVFTTRHQE LGQSGKKMKV  120
AVSSPQCGVH KQVWQSGEIY TLEQFESKSK TFAKSLLGVL KEVSPLHIEA LFWKVASEKP  180
INVEYANDVP GSGFGEPEGQ FRYFHRRRRR RKRMSYRREN ADCKKDEMNT VHNSHIDEIK  240
DTCVKSDQNA WFETPKISTT SSTLASDENS LSKRKSGNAS NDMEGTAGWK LSNSPWNLQV  300
IARSAGSLTR FMPDDIPGVT SPMVYIGMLL SWFAWHVEDH ELHSMNFLHT GSSKTWYAVP  360
GDYAYAFEEV IRTEAYGGNI DRLAALSLLG EKTTLLSPEL IVASGIPCCR LIQNPGEFVV  420
TFPRAYHVGF SHGFNCGEAA NFGTPQWLQV AKEAAVRRAA MNYLPMLSHQ QLLYLLTMSF  480
VSRVPRSLLP GARSSRLRDR QKEERELLVK KAFIEDMLTE NKLLSLLLKR GSTYRAIIWD  540
PDLLPYASKD SELPSETAAV STVLQENVSD IHSKNNTNQN NLLDEMSLYM ENLNYLYLND  600
DDLSCDFQVD SGTLACVACG ILGYPFMSVV QPSEGTLELL PADHLSVLGS AVLESKNTHS  660
CPDLDHPVEC SVSDNVHHVA DQSLPSKDAT SPSITKFCHV WDTSNIYMRP RIFCLEHAVQ  720
VEEILQSKGG AKMLVICHSD YQKIKAHAIP VAEDIGITFN YNDVPLDAAS QEDLNLINLA  780
IDDEHDEIGE DWTSKLGVNL RYCVKVRKNS PFKQVQHALP LGGLFSDKYG SPELFNIKWQ  840
SRKSRSKGKL SHPSSKPCES VELKVGELLL EKLDGNIPKS EQKIIQYSRR KKRKPDYSTG  900
AGGCLELVKD DLPREDSAAT CELPDEHGGS KSKINAKSDS SVLFSSLSTR ASQTQPEIQT  960
TSVVGVVQKD HGKILQESNL NGEGCSLAAC ASSQKQCEIK LMERTSENNE LSLADKCSKF  1020
SVFAAGERFK ESTGAICEVC NPVYEGQCEE LAARHDLINL ANSANSLSAQ PSAGRFDPVL  1080
EDLIVEKSCM NGGVHSCMTS DNEVQQEIEA TSRNNNEDIL CDNKLINKPN LGPEDFSSGV  1140
SLGDEAQQET NTRGGSQVEP FFSSPTLTKG PSTVMVGNRS DVPREPCTAA DLCDVAISKD  1200
KAKKQEIQID ASKEGLLCGS ITPMVIDQRT SLSVEEYSVV SKNPCANELH TGVISDVEVL  1260
QEIQATKGTS GDEVIYCYHL PIKEKQPTPT VMEACSKVQR MCSSEKKSCA DATADDDRHE  1320
NDLIRNEKDE EEPVSCCVIP INQATPVPIQ RYSRTRRESR ATVNVNNGEV CSFVENRDLE  1380
SAVVNCRSSA TDGRKRKREV VEKPEKVGGS GFIRSPCEGL RPRARKDASS SFDVGKTSQE  1440
VLPTKETRKP SIHTQSKKII KKGSHRCDME GCHMSFETKE ELRLHKRNRC PYEGCGKRFR  1500
SHKYAILHQR VHEDDRPLKC PWKGCSMTFK WAWARTEHIR VHTGERPYKC KVVGCGLSFR  1560
FVSDFSRHRR KTGHYVDSSA *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	5e-54	268	473	132	346	Transcription factor jumonji (Jmj) family protein
6ip4_A	5e-54	268	473	132	346	Arabidopsis JMJ13
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	201	210	RYFHRRRRRR
2	205	212	RRRRRRKR
3	206	212	RRRRRKR

Functional Description ? help Back to Top
Source	Description
UniProt	Acts probably as a histone 'Lys-4' (H3K4me) demethylase. Involved in transcriptional gene regulation. Acts as a repressor of the photoperiodic flowering pathway and of FT. Binds around the transcription start site of the FT locus. {ECO:0000269\|PubMed:15377760, ECO:0000269\|PubMed:18467490, ECO:0000269\|PubMed:19946624}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_017984773.1	0.0	PREDICTED: probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A061FPW9	0.0	A0A061FPW9_THECC; Zinc finger family protein / transcription factor jumonji family protein, putative
STRING	EOY18687	0.0	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11520	27	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G04240.1	0.0	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Thecc1EG043183t1
Entrez Gene	18586423

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] Heidari B,Nemie-Feyissa D,Kangasjärvi S,Lillo C Antagonistic regulation of flowering time through distinct regulatory subunits of protein phosphatase 2A. PLoS ONE, 2013. 8(7): p. e67987 [PMID:23976921] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Crevillén P, et al. Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state. Nature, 2014. 515(7528): p. 587-90 [PMID:25219852] Yang H,Howard M,Dean C Physical coupling of activation and derepression activities to maintain an active transcriptional state at FLC. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9369-74 [PMID:27482092]