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: 358aa MW: 40081.1 Da PI: 9.6389

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC1426_p4	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	123.4	9.9e-39	58	135	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 ekrsCrrrL hnerrrk+qa RrC1426_p4 58 RCQVEGCRMDLNNAKRYYSRHKVCCIHSKSSKVIVSGLLQRFCQQCSRFHKLSEFDLEKRSCRRRLTCHNERRRKPQA 135 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	1.1E-30	51	120	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	30.522	56	133	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	3.66E-36	57	137	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	2.8E-28	59	132	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: 358 aa Download sequence Send to blast
MELLTGSGQN RTETVGSSST ESSSLTTGLR FGQKIYLEDG SGSRLSKNRG RKSTTTARCQ 60 VEGCRMDLNN AKRYYSRHKV CCIHSKSSKV IVSGLLQRFC QQCSRFHKLS EFDLEKRSCR 120 RRLTCHNERR RKPQATTASL YGSILGDPTT WSTARDSHQL MNALSQGSSS FSITYPEMVN 180 NNNSRESSCA LSLLSNSNTT QQQQQQQLQT SINDSLRVTM AQSPPVSTVH SQYTNQTWGF 240 MSGKKSNSPC VSPVLGLSQI SEPDELRFLM SNGTTMGGFE LNLQQQVLRQ YLEPDDSRAY 300 LHSIVAYQMI LKNIRNNVES QLLKNVASYF YFLLLFFSSI VTGSTLPDPH LPRADTGL

Sequence ? help Back to Top

Protein Sequence Length: 358 aa Download sequence Send to blast

MELLTGSGQN RTETVGSSST ESSSLTTGLR FGQKIYLEDG SGSRLSKNRG RKSTTTARCQ  60
VEGCRMDLNN AKRYYSRHKV CCIHSKSSKV IVSGLLQRFC QQCSRFHKLS EFDLEKRSCR  120
RRLTCHNERR RKPQATTASL YGSILGDPTT WSTARDSHQL MNALSQGSSS FSITYPEMVN  180
NNNSRESSCA LSLLSNSNTT QQQQQQQLQT SINDSLRVTM AQSPPVSTVH SQYTNQTWGF  240
MSGKKSNSPC VSPVLGLSQI SEPDELRFLM SNGTTMGGFE LNLQQQVLRQ YLEPDDSRAY  300
LHSIVAYQMI LKNIRNNVES QLLKNVASYF YFLLLFFSSI VTGSTLPDPH LPRADTGL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	3e-27	59	132	11	84	squamosa promoter binding protein-like 4
Search in ModeBase

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}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by microRNAs 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	AY086384	1e-91	AY086384.1 Arabidopsis thaliana clone 247919 mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018478551.1	0.0	PREDICTED: squamosa promoter-binding-like protein 15
Swissprot	Q9M2Q6	1e-122	SPL15_ARATH; Squamosa promoter-binding-like protein 15
TrEMBL	A0A078ICR6	1e-145	A0A078ICR6_BRANA; BnaC04g23930D protein
TrEMBL	A0A0D3BX54	1e-145	A0A0D3BX54_BRAOL; Uncharacterized protein
STRING	Bo4g109710.1	1e-145	(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-112	squamosa promoter binding protein-like 15

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] Morea EG, et al. Functional and evolutionary analyses of the miR156 and miR529 families in land plants. BMC Plant Biol., 2016. 16: p. 40 [PMID:26841873] Hyun Y, et al. Multi-layered Regulation of SPL15 and Cooperation with SOC1 Integrate Endogenous Flowering Pathways at the Arabidopsis Shoot Meristem. Dev. Cell, 2016. 37(3): p. 254-66 [PMID:27134142] 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]