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; Brassica

Family

SBP

Protein Properties

Length: 329aa MW: 37073.2 Da PI: 8.9092

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00102380001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	132.6	1.4e-41	90	165	2	77
-SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 Cqv gC++dls k+yh+rh+vC++hsk++vv+vsg+eqrfCqqCsrfh lsefD++krsCrrrLa+hnerrrk++ GSBRNA2T00102380001 90 CQVYGCNMDLSFSKDYHKRHRVCDAHSKSSVVIVSGVEQRFCQQCSRFHFLSEFDDGKRSCRRRLAGHNERRRKPS 165 **************************************************************************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	1.8E-32	85	151	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.479	87	164	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.96E-39	88	167	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.2E-31	90	163	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: 329 aa Download sequence Send to blast
MDSWSYGRSV FLPNGTIAEN QSSMPGFEME TSDGFITKVA SSSYLEENQS SNLSRIDFKF 60 RSYENHGGTS TLPSKKTRAS NSCLQSPPLC QVYGCNMDLS FSKDYHKRHR VCDAHSKSSV 120 VIVSGVEQRF CQQCSRFHFL SEFDDGKRSC RRRLAGHNER RRKPSFYFLP GKRHKLLPQE 180 SFPGSFLYDH RASSLVSFKD EPKPAMEASG VSYIWDLQEA VPRSTCALSL LSAQSQQHLS 240 ANNPNKSFSI TQPSQNLNHS TGDYHQMQPL RIDPGKKTKS VTSSSSCNGN GSSTVDLLQL 300 SSHLQRIQQQ QRTFTDDVKQ EYNELYFP*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	2e-30	89	163	10	84	squamosa promoter binding protein-like 4
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed constitutively during plant development, weak increase during flowering. {ECO:0000269\|PubMed:10524240, ECO:0000269\|PubMed:14573523}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00102380001

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC189298	5e-88	AC189298.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB028I01, complete sequence.
GenBank	AC189458	5e-88	AC189458.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB073F16, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009127706.1	0.0	PREDICTED: squamosa promoter-binding-like protein 6
Swissprot	Q94JW8	1e-138	SPL6_ARATH; Squamosa promoter-binding-like protein 6
TrEMBL	A0A078IH89	0.0	A0A078IH89_BRANA; BnaA02g14580D protein
STRING	Bra038324.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9275	24	35

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G69170.1	1e-119	SBP family protein

Publications ? help Back to Top
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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]