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

Gorai.005G164600.1

Common Name

B456_005G164600, LOC105794471

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

SBP

Protein Properties

Length: 310aa MW: 33477.4 Da PI: 10.3504

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.005G164600.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	132.6	1.3e-41	25	101	2	78
-SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 C v+gC+adls++++yhrrhkvCevhsk+p+v ++g+eqrfCqqCsrfh+l efDe+krsCr+rL++hn+rrrk+q+ Gorai.005G164600.1 25 CLVDGCTADLSKCRDYHRRHKVCEVHSKTPKVSIRGQEQRFCQQCSRFHSLVEFDEGKRSCRKRLDGHNRRRRKPQP 101 **************************************************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	9.1E-35	18	86	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.274	22	99	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	6.54E-39	23	104	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.3E-30	25	98	IPR004333	Transcription factor, SBP-box

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

Sequence ? help Back to Top
Protein Sequence Length: 310 aa Download sequence Send to blast
MESAPSSASF KRARPPGSGN QVPSCLVDGC TADLSKCRDY HRRHKVCEVH SKTPKVSIRG 60 QEQRFCQQCS RFHSLVEFDE GKRSCRKRLD GHNRRRRKPQ PNALTVNSGS LLSNPPGSRY 120 LLFSSPQIFS TTSMTDSSTG AVKVKTDISS SLNFSSRNSS FVGASSLNYK GERQFSFLQS 180 ANSSHPGVSV CQPLVNGNPS SSNGGISQKM LLNGLNRTVE SNRALSLLSS QPAETREISL 240 SPMVQSGSTS SLIPNLQYKG LGMEGEQVGT ILATDQITNT DLHGNGVFRI GHPGSSASGT 300 HHRLTFSWE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	9e-30	25	98	11	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	81	98	KRSCRKRLDGHNRRRRKP

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Strongly expressed in immature ears and weakly in husks. Found in the inflorescence meristem of the developing ear, in the spikelet pair primordia, the glume primordia, the cupule forming region and other floral organs. Not detected in other tissues. {ECO:0000250\|UniProtKB:Q49I55}.

Functional Description ? help Back to Top
Source	Description
UniProt	SBP transcriptional regulator probably involved in the domestication of maize. Acts as a transcriptional repressor binding to a 5'-GTAC-3' motif. May repress the growth of lateral branches in length and numbers. {ECO:0000250\|UniProtKB:Q49I55}.

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	KJ622329	0.0	KJ622329.1 Gossypium hirsutum SQUAMOSA promoter binding-like transcription factor (SPL21) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012479105.1	0.0	PREDICTED: squamosa promoter-binding-like protein 16
Refseq	XP_012479106.1	0.0	PREDICTED: squamosa promoter-binding-like protein 16
Refseq	XP_012479107.1	0.0	PREDICTED: squamosa promoter-binding-like protein 16
Refseq	XP_012479108.1	0.0	PREDICTED: squamosa promoter-binding-like protein 16
Refseq	XP_012479109.1	0.0	PREDICTED: squamosa promoter-binding-like protein 16
Swissprot	Q49I57	7e-61	TGA1B_MAIZE; Teosinte glume architecture 1
TrEMBL	A0A0D2SI93	0.0	A0A0D2SI93_GOSRA; Uncharacterized protein
STRING	Gorai.005G164600.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4111	27	59

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G50670.1	5e-50	SBP family protein

Link Out ? help Back to Top
Phytozome	Gorai.005G164600.1
Entrez Gene	105794471

Publications ? help Back to Top
Schnable PS, et al. The B73 maize genome: complexity, diversity, and dynamics. Science, 2009. 326(5956): p. 1112-5 [PMID:19965430] Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886]