PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

SBP

Protein Properties

Length: 321aa MW: 35642.8 Da PI: 8.9047

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01094.1_g00010.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	94.7	8.7e-30	56	126	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +CqvegC++dls+ak+y++rhkvC vhsk+++v+vsgl+qr fh+lsefD ekrsCrrrLa hnerrrk+qa Rsa1.0_01094.1_g00010.1 56 RCQVEGCRMDLSNAKTYYSRHKVCCVHSKSSKVIVSGLHQR-------FHQLSEFDLEKRSCRRRLACHNERRRKPQA 126 6************************************97.......7************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	2.6E-21	50	111	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	23.581	54	124	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	7.06E-29	55	128	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	3.6E-19	57	123	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0008361	Biological Process	regulation of cell size
GO:0010228	Biological Process	vegetative to reproductive phase transition of meristem
GO:0042127	Biological Process	regulation of cell proliferation
GO:0048653	Biological Process	anther development
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 321 aa Download sequence Send to blast
MELLKSSGQN QPESAGSSST LSGGLRFGQK IYFEDGSGAG LSKNRVNAGR KSMTARCQVE 60 GCRMDLSNAK TYYSRHKVCC VHSKSSKVIV SGLHQRFHQL SEFDLEKRSC RRRLACHNER 120 RRKPQATTTL LTSRFASIAP SLYGNAIRGV LGDPATWSTT ARGSAPWQSH QLMNVFSYGN 180 SSFTNSTDSS CALSLLSNSN PTQQEQQPLQ TPTTTWRPSL DFDSVVADRV TMAQPPPVSI 240 QNQYLNQTWE FMSGEKSNEH CISPALGLNQ ISEPVDFQIS NGTTTMGGFE LSLHQQVLRQ 300 YLEPENTRAY DSPPQQFNWS L

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	1e-20	57	123	11	84	squamosa promoter binding protein-like 4
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor required for the flowering response to vernalization in the shoot apical meristem (SAM) (PubMed:30679374). Defines the competence of shoot meristems to flower in response to vernalization in perennials (PubMed:30679374). {ECO:0000269\|PubMed:30679374}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00412	DAP	Transfer from AT3G57920	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_01094.1_g00010.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced in the shoot apical meristem (SAM) during vernalization. {ECO:0000269\|PubMed:30679374}.

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	AC189445	1e-135	AC189445.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB070L01, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018445714.1	0.0	PREDICTED: squamosa promoter-binding-like protein 15
Refseq	XP_018446184.1	0.0	PREDICTED: squamosa promoter-binding-like protein 15
Swissprot	S4WUL1	1e-152	SPL15_ARAAL; Squamosa promoter-binding protein-like 15
TrEMBL	A0A0D3CUG0	0.0	A0A0D3CUG0_BRAOL; Uncharacterized protein
STRING	Bo6g073290.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2144	27	75

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G57920.1	1e-135	squamosa promoter binding protein-like 15

Publications ? help Back to Top
Willing EM, et al. Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation. Nat Plants, 2015. 1: p. 14023 [PMID:27246759] Hyun Y, et al. A regulatory circuit conferring varied flowering response to cold in annual and perennial plants. Science, 2019. 363(6425): p. 409-412 [PMID:30679374]