PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

XP_013637567.1

Organism

Brassica oleracea

Taxonomic ID

3712

Taxonomic Lineage

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: 364aa MW: 39993 Da PI: 7.5477

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013637567.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	135.1	2.2e-42	70	147	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +CqvegC +dl++ak y+ rh+vC +hsk+p v+v g+eqrfCqqCsrfh+l+efD ekrsCrrrLa+hnerrrk+q+ XP_013637567.1 70 RCQVEGCGVDLTNAKGYYLRHRVCGMHSKTPRVIVGGIEQRFCQQCSRFHQLQEFDLEKRSCRRRLAGHNERRRKPQP 147 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	2.5E-34	63	132	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	31.898	68	145	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.96E-40	69	149	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	4.2E-32	71	144	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010228	Biological Process	vegetative to reproductive phase transition of meristem
GO:0048653	Biological Process	anther development
GO:2000025	Biological Process	regulation of leaf formation
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 364 aa Download sequence Send to blast
MNMGSNSGQG LGPVQAESGG SSNESSSFSG GLMFGQKIYF EDAGVGSSSS GGSNRRVRGG 60 GSGQSSQIPR CQVEGCGVDL TNAKGYYLRH RVCGMHSKTP RVIVGGIEQR FCQQCSRFHQ 120 LQEFDLEKRS CRRRLAGHNE RRRKPQPASL SVLSSRYGRI APSLYGNAET TMNGSFLGSQ 180 DMSWTSSRTL DTRVMRRPVA APSWQINPMD VFSQGSVSGG GGISFSSPEI MDTKPESYKG 240 IGGESNCALS LLSNPHQPQD DDNNNNTWRT SSGFGPMTVT MAQPPPAPSQ HQYLNPPWVF 300 KDDDNNCPND MSPVLNLARF TETDTTMGEF ELSDHHQHQN RRQYMEDENT RAYDSSSHHN 360 NWSL

Sequence ? help Back to Top

Protein Sequence Length: 364 aa Download sequence Send to blast

MNMGSNSGQG LGPVQAESGG SSNESSSFSG GLMFGQKIYF EDAGVGSSSS GGSNRRVRGG  60
GSGQSSQIPR CQVEGCGVDL TNAKGYYLRH RVCGMHSKTP RVIVGGIEQR FCQQCSRFHQ  120
LQEFDLEKRS CRRRLAGHNE RRRKPQPASL SVLSSRYGRI APSLYGNAET TMNGSFLGSQ  180
DMSWTSSRTL DTRVMRRPVA APSWQINPMD VFSQGSVSGG GGISFSSPEI MDTKPESYKG  240
IGGESNCALS LLSNPHQPQD DDNNNNTWRT SSGFGPMTVT MAQPPPAPSQ HQYLNPPWVF  300
KDDDNNCPND MSPVLNLARF TETDTTMGEF ELSDHHQHQN RRQYMEDENT RAYDSSSHHN  360
NWSL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	1e-29	61	144	1	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, with a strong increase during flower development. {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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00307	DAP	Transfer from AT2G42200	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013637567.1

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	AK353538	0.0	AK353538.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-50-J24.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013637567.1	0.0	PREDICTED: squamosa promoter-binding-like protein 9
Swissprot	Q700W2	0.0	SPL9_ARATH; Squamosa promoter-binding-like protein 9
TrEMBL	A0A0D3C5S0	0.0	A0A0D3C5S0_BRAOL; Uncharacterized protein
STRING	Bo4g191350.1	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
AT2G42200.1	1e-178	squamosa promoter binding protein-like 9

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] Yu ZX, et al. Progressive Regulation of Sesquiterpene Biosynthesis in Arabidopsis and Patchouli (Pogostemon cablin) by the miR156-Targeted SPL Transcription Factors. Mol Plant, 2015. [PMID:25355059] Yu N,Niu QW,Ng KH,Chua NH The role of miR156/SPLs modules in Arabidopsis lateral root development. Plant J., 2015. 83(4): p. 673-85 [PMID:26096676] 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] Mahmood K,Xu Z,El-Kereamy A,Casaretto JA,Rothstein SJ The Arabidopsis Transcription Factor ANAC032 Represses Anthocyanin Biosynthesis in Response to High Sucrose and Oxidative and Abiotic Stresses. Front Plant Sci, 2016. 7: p. 1548 [PMID:27790239] Mao YB, et al. Jasmonate response decay and defense metabolite accumulation contributes to age-regulated dynamics of plant insect resistance. Nat Commun, 2017. 8: p. 13925 [PMID:28067238] Nguyen ST,Greaves T,McCurdy DW Heteroblastic Development of Transfer Cells Is Controlled by the microRNA miR156/SPL Module. Plant Physiol., 2017. 173(3): p. 1676-1691 [PMID:28082719] Duan HC, et al. ALKBH10B Is an RNA N6-Methyladenosine Demethylase Affecting Arabidopsis Floral Transition. Plant Cell, 2017. 29(12): p. 2995-3011 [PMID:29180595] Dotto M,Gómez MS,Soto MS,Casati P UV-B radiation delays flowering time through changes in the PRC2 complex activity and miR156 levels in Arabidopsis thaliana. Plant Cell Environ., 2018. 41(6): p. 1394-1406 [PMID:29447428] He J, et al. Threshold-dependent repression of SPL gene expression by miR156/miR157 controls vegetative phase change in Arabidopsis thaliana. PLoS Genet., 2018. 14(4): p. e1007337 [PMID:29672610]