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; Arabideae; Arabis

Family

SBP

Protein Properties

Length: 355aa MW: 39409.9 Da PI: 9.451

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KFK35084.1	genome	MPIPBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	127.1	6.7e-40	63	140	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +CqvegC++dl++ak+y++rhkvC +hsk+++v+vsgl qrfCqqCsrfh lsefD ekrsCrrrLa hnerrrk+qa KFK35084.1 63 RCQVEGCRMDLTNAKSYYSRHKVCCIHSKSSKVIVSGLPQRFCQQCSRFHLLSEFDLEKRSCRRRLACHNERRRKPQA 140 6**************************************************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	2.3E-31	58	125	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	30.983	61	138	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	3.79E-37	62	141	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	7.6E-29	64	137	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: 355 aa Download sequence Send to blast
MELLKGSGLN QTESGGSSST ESSSLSGGLR FGQKIYFEDG SGSGSGSSKN RVHNTGRKSL 60 TARCQVEGCR MDLTNAKSYY SRHKVCCIHS KSSKVIVSGL PQRFCQQCSR FHLLSEFDLE 120 KRSCRRRLAC HNERRRKPQA TTSLLSSRYA RTAPSLYGNA NSAMIRSVLG DPTAWATARS 180 AMRWSGPERE SHQVMNVFSS HGSSSFTTTC PEMMMNNNGT DSSCALSLLS NTNPNQQLQQ 240 HQLQTPTNVW RPSSGFNPVI ADRVTMAQPP PVSIHNQYLN NQTWEFTTGE KSNLQYMSPV 300 LGPSQISQPA DFQISNGSTM GGFELSHHQQ VLRQYMEPEN TRAYDSSPQH FNWSL

Sequence ? help Back to Top

Protein Sequence Length: 355 aa Download sequence Send to blast

MELLKGSGLN QTESGGSSST ESSSLSGGLR FGQKIYFEDG SGSGSGSSKN RVHNTGRKSL  60
TARCQVEGCR MDLTNAKSYY SRHKVCCIHS KSSKVIVSGL PQRFCQQCSR FHLLSEFDLE  120
KRSCRRRLAC HNERRRKPQA TTSLLSSRYA RTAPSLYGNA NSAMIRSVLG DPTAWATARS  180
AMRWSGPERE SHQVMNVFSS HGSSSFTTTC PEMMMNNNGT DSSCALSLLS NTNPNQQLQQ  240
HQLQTPTNVW RPSSGFNPVI ADRVTMAQPP PVSIHNQYLN NQTWEFTTGE KSNLQYMSPV  300
LGPSQISQPA DFQISNGSTM GGFELSHHQQ VLRQYMEPEN TRAYDSSPQH FNWSL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	5e-28	64	137	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	KFK35084.1

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	KC815962	0.0	KC815962.1 Arabis alpina SQUAMOSA promoter binding protein-like protein 15 (SPL15) gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002878178.1	0.0	squamosa promoter-binding-like protein 15
Swissprot	S4WUL1	0.0	SPL15_ARAAL; Squamosa promoter-binding protein-like 15
TrEMBL	D7LVY0	0.0	D7LVY0_ARALL; Uncharacterized protein
STRING	S4WUL1	0.0	(Arabis alpina)

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-153	squamosa promoter binding protein-like 15

Publications ? help Back to Top
Bergonzi S, et al. Mechanisms of age-dependent response to winter temperature in perennial flowering of Arabis alpina. Science, 2013. 340(6136): p. 1094-7 [PMID:23723236] 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]