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

Thecc1EG002030t1

Common Name

TCM_002030

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

FAR1

Protein Properties

Length: 843aa MW: 96549.3 Da PI: 7.0827

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG002030t1	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	88.9	6.9e-28	80	166	2	91
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkktekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHelap 91 fY+eYAk++GF++++++s++sk+++e+++++f Cs++g + e++ ++r++++++t+Cka+++vk++ dgkw ++++++eHnHel p Thecc1EG002030t1 80 FYQEYAKSMGFTTSIKNSRRSKKSKEFIDAKFACSRYGVTPESDVG---SSRRSSVKKTDCKASMHVKRRPDGKWIIHEFVKEHNHELLP 166 9*************************************999877...889999******************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	2.6E-25	80	166	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	3.7E-28	286	379	IPR018289	MULE transposase domain
PROSITE profile	PS50966	10.237	566	602	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	3.9E-7	574	601	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	2.3E-7	577	604	IPR006564	Zinc finger, PMZ-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010018	Biological Process	far-red light signaling pathway
GO:0042753	Biological Process	positive regulation of circadian rhythm
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 843 aa Download sequence Send to blast
MIKVRENQNA ISNMVDCRDA VPCIDGVNEN MVDIVDEAAH GRDGAIVDSS KRAVIGFEGD 60 TDFEPRNGIE FESHEAAYAF YQEYAKSMGF TTSIKNSRRS KKSKEFIDAK FACSRYGVTP 120 ESDVGSSRRS SVKKTDCKAS MHVKRRPDGK WIIHEFVKEH NHELLPALAY HFRIYRNVKL 180 AEKNNIDILN AVSERTRKMY VEMSRQSGGY QNVSLLQNDI KDQFDKGRHL VVDEGDAQIM 240 LEYFKRIKKE NPDFFYAIDL NEEQRLRNLF WVDAKSRKDY ASFSDVVSFD TTYVKFNEKL 300 PFAPFVGVNH HFQSMLLGCA LLADETKPTL VWLMKTWLRA MGGQAPKVII TDQDKALKAA 360 VQEVFPTARH CFALWHILEK IPKSLAHVIG QHENFLPKFN KCIFKSWTDE GFDMRWWKMI 420 TRFELQDDEW VQSLYEDRKR WVPTFMDDVF LAGMSTSQRS ESMNSFFDKY IHKKITLKEF 480 VKQYGAILQN RYEEEAVADF DTWQKQPALK SPSPWEKQMS IVYTHAIFKK FQVEVLGVVG 540 CHPKRENEDE GTITFRVQDC EKDENFLVIW NEEKSEVSCS CHMFEYRGFL CRHAMIVLQM 600 CGRTSIPPCY ILKRWTKDAK SGQSTAEGTD RVQTRVQRYN ELCKQAIELS EEGSLSEESH 660 NIAFRALVEA LKNCVNVNNS CISAVESVGH AHGLRETVEE NQGSLASKSS KKKNTNKKRK 720 GQSEPALMFV DAQDSLQQME NLSSDGISLN GYYGAQQNVQ GLVQLNLMEP PHDGYYVNQQ 780 SMQGLGQLNS IAPSHDSFFG TQQSMHGLGQ LDYRPPASFS YALQDEPQLR STQLHGGVSR 840 HP*

Sequence ? help Back to Top

Protein Sequence Length: 843 aa Download sequence Send to blast

MIKVRENQNA ISNMVDCRDA VPCIDGVNEN MVDIVDEAAH GRDGAIVDSS KRAVIGFEGD  60
TDFEPRNGIE FESHEAAYAF YQEYAKSMGF TTSIKNSRRS KKSKEFIDAK FACSRYGVTP  120
ESDVGSSRRS SVKKTDCKAS MHVKRRPDGK WIIHEFVKEH NHELLPALAY HFRIYRNVKL  180
AEKNNIDILN AVSERTRKMY VEMSRQSGGY QNVSLLQNDI KDQFDKGRHL VVDEGDAQIM  240
LEYFKRIKKE NPDFFYAIDL NEEQRLRNLF WVDAKSRKDY ASFSDVVSFD TTYVKFNEKL  300
PFAPFVGVNH HFQSMLLGCA LLADETKPTL VWLMKTWLRA MGGQAPKVII TDQDKALKAA  360
VQEVFPTARH CFALWHILEK IPKSLAHVIG QHENFLPKFN KCIFKSWTDE GFDMRWWKMI  420
TRFELQDDEW VQSLYEDRKR WVPTFMDDVF LAGMSTSQRS ESMNSFFDKY IHKKITLKEF  480
VKQYGAILQN RYEEEAVADF DTWQKQPALK SPSPWEKQMS IVYTHAIFKK FQVEVLGVVG  540
CHPKRENEDE GTITFRVQDC EKDENFLVIW NEEKSEVSCS CHMFEYRGFL CRHAMIVLQM  600
CGRTSIPPCY ILKRWTKDAK SGQSTAEGTD RVQTRVQRYN ELCKQAIELS EEGSLSEESH  660
NIAFRALVEA LKNCVNVNNS CISAVESVGH AHGLRETVEE NQGSLASKSS KKKNTNKKRK  720
GQSEPALMFV DAQDSLQQME NLSSDGISLN GYYGAQQNVQ GLVQLNLMEP PHDGYYVNQQ  780
SMQGLGQLNS IAPSHDSFFG TQQSMHGLGQ LDYRPPASFS YALQDEPQLR STQLHGGVSR  840
HP*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that recognizes and binds to the DNA consensus sequence 5'-CACGCGC-3'. Activates the expression of FHY1 and FHL involved in light responses. Positive regulator of chlorophyll biosynthesis via the activation of HEMB1 gene expression. {ECO:0000269\|PubMed:11889039, ECO:0000269\|PubMed:12753585, ECO:0000269\|PubMed:18033885, ECO:0000269\|PubMed:22634759}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00434	DAP	Transfer from AT4G15090	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated after exposure to far-red light. Subject to a negative feedback regulation by PHYA signaling. {ECO:0000269\|PubMed:18033885}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007049034.2	0.0	PREDICTED: protein FAR-RED IMPAIRED RESPONSE 1
Swissprot	Q9SWG3	0.0	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A061DMC6	0.0	A0A061DMC6_THECC; FRS (FAR1 Related Sequences) transcription factor family
STRING	EOX93191	0.0	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM118	26	253

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G15090.1	0.0	FAR1 family protein

Link Out ? help Back to Top
Phytozome	Thecc1EG002030t1
Entrez Gene	18612264

Publications ? help Back to Top
Domergue F, et al. Three Arabidopsis fatty acyl-coenzyme A reductases, FAR1, FAR4, and FAR5, generate primary fatty alcohols associated with suberin deposition. Plant Physiol., 2010. 153(4): p. 1539-54 [PMID:20571114] Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] 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] Wang C, et al. SCAB3 Is Required for Reorganization of Actin Filaments during Light Quality Changes. J Genet Genomics, 2015. 42(4): p. 161-8 [PMID:25953354] Wang W, et al. A pair of light signaling factors FHY3 and FAR1 regulates plant immunity by modulating chlorophyll biosynthesis. J Integr Plant Biol, 2016. 58(1): p. 91-103 [PMID:25989254] Ma L, et al. Arabidopsis FHY3 and FAR1 Regulate Light-Induced myo-Inositol Biosynthesis and Oxidative Stress Responses by Transcriptional Activation of MIPS1. Mol Plant, 2016. 9(4): p. 541-57 [PMID:26714049] Siddiqui H,Khan S,Rhodes BM,Devlin PF FHY3 and FAR1 Act Downstream of Light Stable Phytochromes. Front Plant Sci, 2016. 7: p. 175 [PMID:26941752] Liu L,Li B,Liu X FAR-RED ELONGATED HYPOCOTYL3 promotes floral meristem determinacy in Arabidopsis. Plant Signal Behav, 2016. 11(10): p. e1238545 [PMID:27660915] Ma L,Xue N,Fu X,Zhang H,Li G Arabidopsis thaliana FAR-RED ELONGATED HYPOCOTYLS3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1) modulate starch synthesis in response to light and sugar. New Phytol., 2017. 213(4): p. 1682-1696 [PMID:27859295] Liu Y, et al. Light and Ethylene Coordinately Regulate the Phosphate Starvation Response through Transcriptional Regulation of PHOSPHATE STARVATION RESPONSE1. Plant Cell, 2017. 29(9): p. 2269-2284 [PMID:28842534] Joly-Lopez Z, et al. Abiotic Stress Phenotypes Are Associated with Conserved Genes Derived from Transposable Elements. Front Plant Sci, 2017. 8: p. 2027 [PMID:29250089]