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; Camelineae; Capsella

Family

SBP

Protein Properties

Length: 395aa MW: 44179.1 Da PI: 8.5452

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10009367m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	127.9	3.9e-40	175	251	1	77
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 +Cq++gC+ dls+ak+yhr+hkvCe+hsk+p v+vsgle+rfCqqCsrfh++sefDe+krsCr+rL++hn+rrrk+q Carubv10009367m 175 RCQIDGCDLDLSSAKDYHRKHKVCEKHSKCPRVTVSGLERRFCQQCSRFHAVSEFDEKKRSCRKRLSHHNARRRKPQ 251 6**************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	1.0E-32	168	237	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.368	173	250	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.31E-37	174	252	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.5E-30	176	249	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0048510	Biological Process	regulation of timing of transition from vegetative to reproductive phase
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 395 aa Download sequence Send to blast
MDCNMVSPFQ WDWENLIMSN PSRTENDNKQ LSTEWETEKG DGIESIVPDF LGFERVSSGS 60 ATSFWHTAVS KSSQSTSTNS SSPNVKRCKL ASESSPADSC NNIDFVHVKA TTALDASLAS 120 AESDLCLKLG KQAYSEEFWG RNNNEISAVS MKLLTPSVVA RKKSKSCGQS MQVPRCQIDG 180 CDLDLSSAKD YHRKHKVCEK HSKCPRVTVS GLERRFCQQC SRFHAVSEFD EKKRSCRKRL 240 SHHNARRRKP QGLFSMNPER VYDRRQHSNM LWNGLSLNTN SKEKYEWETT YDTKPRQAES 300 GFTLSFQRGN GSEEQLVGSS SRSFSTFQTS GGFSVGKSKF QLQGQGVGEY SGVLHESQDF 360 HRALSLLSTS SDPLAQPHAH PLPLPFSYDV VPNR*

Sequence ? help Back to Top

Protein Sequence Length: 395 aa Download sequence Send to blast

MDCNMVSPFQ WDWENLIMSN PSRTENDNKQ LSTEWETEKG DGIESIVPDF LGFERVSSGS  60
ATSFWHTAVS KSSQSTSTNS SSPNVKRCKL ASESSPADSC NNIDFVHVKA TTALDASLAS  120
AESDLCLKLG KQAYSEEFWG RNNNEISAVS MKLLTPSVVA RKKSKSCGQS MQVPRCQIDG  180
CDLDLSSAKD YHRKHKVCEK HSKCPRVTVS GLERRFCQQC SRFHAVSEFD EKKRSCRKRL  240
SHHNARRRKP QGLFSMNPER VYDRRQHSNM LWNGLSLNTN SKEKYEWETT YDTKPRQAES  300
GFTLSFQRGN GSEEQLVGSS SRSFSTFQTS GGFSVGKSKF QLQGQGVGEY SGVLHESQDF  360
HRALSLLSTS SDPLAQPHAH PLPLPFSYDV VPNR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	1e-26	176	249	11	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	231	248	KKRSCRKRLSHHNARRRK

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00161	DAP	Transfer from AT1G27360	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10009367m

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by microRNAs miR156 and miR157. {ECO:0000305\|PubMed:12202040}.

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	AJ011635	0.0	AJ011635.1 Arabidopsis thaliana (ecotype Columbia) mRNA for squamosa promoter binding protein-like 11.
GenBank	AY070106	0.0	AY070106.1 Arabidopsis thaliana putative squamosa-promoter binding protein 2 (At1g27360) mRNA, complete cds.
GenBank	AY088185	0.0	AY088185.1 Arabidopsis thaliana clone 42666 mRNA, complete sequence.
GenBank	AY091286	0.0	AY091286.1 Arabidopsis thaliana putative squamosa-promoter binding protein 2 (At1g27360) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006305003.1	0.0	squamosa promoter-binding-like protein 11
Refseq	XP_023633113.1	0.0	squamosa promoter-binding-like protein 11
Refseq	XP_023633114.1	0.0	squamosa promoter-binding-like protein 11
Swissprot	Q9FZK0	0.0	SPL11_ARATH; Squamosa promoter-binding-like protein 11
TrEMBL	R0GPQ0	0.0	R0GPQ0_9BRAS; Uncharacterized protein
STRING	XP_006305003.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5004	16	53

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G27360.4	0.0	squamosa promoter-like 11

Link Out ? help Back to Top
Phytozome	Carubv10009367m
Entrez Gene	17899875

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Stief A, et al. Arabidopsis miR156 Regulates Tolerance to Recurring Environmental Stress through SPL Transcription Factors. Plant Cell, 2014. 26(4): p. 1792-1807 [PMID:24769482] Liu J, et al. The RhoGAP SPIN6 associates with SPL11 and OsRac1 and negatively regulates programmed cell death and innate immunity in rice. PLoS Pathog., 2015. 11(2): p. e1004629 [PMID:25658451] Xu M, et al. Developmental Functions of miR156-Regulated SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Genes in Arabidopsis thaliana. PLoS Genet., 2016. 12(8): p. e1006263 [PMID:27541584]