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

Thecc1EG004922t2

Common Name

TCM_004922

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

SBP

Protein Properties

Length: 983aa MW: 108368 Da PI: 6.4526

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG004922t2	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	128.1	3.3e-40	149	226	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +Cqve+C adls k+yhrrhkvCe+hska+++lv +++qrfCqqCsrfh l+efDe+krsCrrrLa+hn+rrrk+++ Thecc1EG004922t2 149 VCQVEDCGADLSCSKDYHRRHKVCEMHSKASKALVGNVMQRFCQQCSRFHVLQEFDEGKRSCRRRLAGHNKRRRKTNP 226 6**************************************************************************976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	7.3E-33	142	211	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	31.829	147	224	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	2.22E-37	148	230	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	6.0E-29	150	223	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF48403	2.35E-6	753	865	IPR020683	Ankyrin repeat-containing domain
Gene3D	G3DSA:1.25.40.20	1.4E-5	753	878	IPR020683	Ankyrin repeat-containing domain
CDD	cd00204	3.64E-6	754	865	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0016021	Cellular Component	integral component of membrane
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 983 aa Download sequence Send to blast
MEARFGSDAH HFYGMNPANL RAVGKRTLEW DLNDWKWDGD LFIASSINPV SADSTGRQFF 60 PLGSGIPGNS SNSSSSCSDE VNLETEKGKR ELEKKRRVIV VEDDSPNEEA GSLTLKLGGQ 120 GGHGYPISQR EGTSGKKTKL GGGSGNRAVC QVEDCGADLS CSKDYHRRHK VCEMHSKASK 180 ALVGNVMQRF CQQCSRFHVL QEFDEGKRSC RRRLAGHNKR RRKTNPDTVV NGNSLNDEQT 240 SGYLLLSLLK ILSNMHSNRS DQTTDQDVLS HLLRSLANHT GEQGGRNISG LLPEPQDSEA 300 VSALFLNGQG PPRPFKQHHT GAASEMAEKG VSSQGTRGVK VQGNTAGAVK MNNFDLNDIY 360 IDSDEGTDDI ERSPAAVNTG TSSLDCPSWI QQDSHQSSPP QTSGNSDSAS AQSPSSSSGD 420 AQQSRTDRIV FKLFGKEPND FPMVLRAQIL DWLSHSPTDI ESYIRPGCIV LTIYLRQAEA 480 AWDELCCDLS FTLSRLLDCS DDTFWRSGWI YIRVQDQIAF IYNGQVVVDT SLPLRSNHYS 540 KITSVKPIAI SATERAQFSV KGINLSRPAT RLLCAVEGKC LLQETTNELM DGNDDYKEQD 600 ELQCVNFSCS VPTVTGRGFI EIEDHGFSSS FFPFIVAEED VCSEVRMLES VLEISDTDAD 660 VGGTGKLEAK HRAMDFIHEV GWLLHRCQLK SRLGHLDPNP EPFPLSRFKW LMEFSMDHEW 720 CAVVKKLLNI LLNGVVGSGE HPSLNLALTE MGLLHRAVRK NCRPLVELLL RFVPEKASDK 780 LGFENETLTG VDHKSFLFRP DVLGPAGLTP LHIAAGKDGS EDVLDALTDD PGKVGIDAWK 840 SARDSTGSTP EDYARLRGHY SYIHLVQKKI NKRTASGHVV VDIPGALSEC SMNQKQNNES 900 TSSFEIGRLE LRSIQRHCKL CDQKLAYGCG TTSKSLVYRP AMLSMVAIAA VCVCVALLFK 960 SCPEVLYVFR PFRWELLDYG TS*

Sequence ? help Back to Top

Protein Sequence Length: 983 aa Download sequence Send to blast

MEARFGSDAH HFYGMNPANL RAVGKRTLEW DLNDWKWDGD LFIASSINPV SADSTGRQFF  60
PLGSGIPGNS SNSSSSCSDE VNLETEKGKR ELEKKRRVIV VEDDSPNEEA GSLTLKLGGQ  120
GGHGYPISQR EGTSGKKTKL GGGSGNRAVC QVEDCGADLS CSKDYHRRHK VCEMHSKASK  180
ALVGNVMQRF CQQCSRFHVL QEFDEGKRSC RRRLAGHNKR RRKTNPDTVV NGNSLNDEQT  240
SGYLLLSLLK ILSNMHSNRS DQTTDQDVLS HLLRSLANHT GEQGGRNISG LLPEPQDSEA  300
VSALFLNGQG PPRPFKQHHT GAASEMAEKG VSSQGTRGVK VQGNTAGAVK MNNFDLNDIY  360
IDSDEGTDDI ERSPAAVNTG TSSLDCPSWI QQDSHQSSPP QTSGNSDSAS AQSPSSSSGD  420
AQQSRTDRIV FKLFGKEPND FPMVLRAQIL DWLSHSPTDI ESYIRPGCIV LTIYLRQAEA  480
AWDELCCDLS FTLSRLLDCS DDTFWRSGWI YIRVQDQIAF IYNGQVVVDT SLPLRSNHYS  540
KITSVKPIAI SATERAQFSV KGINLSRPAT RLLCAVEGKC LLQETTNELM DGNDDYKEQD  600
ELQCVNFSCS VPTVTGRGFI EIEDHGFSSS FFPFIVAEED VCSEVRMLES VLEISDTDAD  660
VGGTGKLEAK HRAMDFIHEV GWLLHRCQLK SRLGHLDPNP EPFPLSRFKW LMEFSMDHEW  720
CAVVKKLLNI LLNGVVGSGE HPSLNLALTE MGLLHRAVRK NCRPLVELLL RFVPEKASDK  780
LGFENETLTG VDHKSFLFRP DVLGPAGLTP LHIAAGKDGS EDVLDALTDD PGKVGIDAWK  840
SARDSTGSTP EDYARLRGHY SYIHLVQKKI NKRTASGHVV VDIPGALSEC SMNQKQNNES  900
TSSFEIGRLE LRSIQRHCKL CDQKLAYGCG TTSKSLVYRP AMLSMVAIAA VCVCVALLFK  960
SCPEVLYVFR PFRWELLDYG TS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	6e-30	142	223	4	84	squamosa promoter binding protein-like 4
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' of AP1 promoter. Binds specifically to the 5'-GTAC-3' core sequence. {ECO:0000269\|PubMed:10524240, ECO:0000269\|PubMed:16095614}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00633	PBM	Transfer from PK06791.1	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	KJ622325	0.0	KJ622325.1 Gossypium hirsutum SQUAMOSA promoter binding-like transcription factor (SPL17) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_017979528.1	0.0	PREDICTED: squamosa promoter-binding-like protein 1
Swissprot	Q9SMX9	0.0	SPL1_ARATH; Squamosa promoter-binding-like protein 1
TrEMBL	A0A061DRR7	0.0	A0A061DRR7_THECC; Squamosa promoter-binding protein, putative isoform 2
STRING	EOX95415	0.0	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3030	27	64

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47070.1	0.0	squamosa promoter binding protein-like 1

Link Out ? help Back to Top
Phytozome	Thecc1EG004922t2
Entrez Gene	18613790

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] Jorgensen SA,Preston JC Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis. Mol. Phylogenet. Evol., 2014. 73: p. 129-39 [PMID:24508602] Chao LM, et al. Arabidopsis Transcription Factors SPL1 and SPL12 Confer Plant Thermotolerance at Reproductive Stage. Mol Plant, 2017. 10(5): p. 735-748 [PMID:28400323]