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

WALNUT_00016104-RA

Organism

Juglans regia

Taxonomic ID

51240

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Juglandaceae; Juglans

Family

SBP

Protein Properties

Length: 183aa MW: 20819.4 Da PI: 9.5641

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
WALNUT_00016104-RA	genome	JHU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	135.5	1.7e-42	60	137	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +Cq+e+C+adls+ak+yhrrhkvCe+h+ka+vvlv g++qrfCqqCsrfhelsefDe+krsCrrrLa+hnerrrk++a WALNUT_00016104-RA 60 CCQAEKCTADLSDAKQYHRRHKVCEFHAKAQVVLVGGIRQRFCQQCSRFHELSEFDETKRSCRRRLAGHNERRRKNSA 137 6**************************************************************************976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	9.5E-34	54	122	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.282	58	135	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	9.42E-39	59	139	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.8E-32	61	134	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010321	Biological Process	regulation of vegetative phase change
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 183 aa Download sequence Send to blast
MNLDNVSGNY QKMEKQQKVV KKEVVESDEE LEGVEEEKRK KGVMDGGGGL GKKGGNGLRC 60 CQAEKCTADL SDAKQYHRRH KVCEFHAKAQ VVLVGGIRQR FCQQCSRFHE LSEFDETKRS 120 CRRRLAGHNE RRRKNSAESH AEGSSRKGTG TQLKDIVCGQ VDDRGRIQIS IHENSTYKHF 180 QIR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	1e-39	51	134	1	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' of AP1 promoter. Promotes both vegetative phase change and flowering. {ECO:0000269\|PubMed:10524240, ECO:0000269\|PubMed:16914499}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00634	PBM	Transfer from PK22320.1	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by microRNAs miR156 and miR157. {ECO:0000305\|PubMed:12202040, ECO:0000305\|PubMed:16914499}.

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	AY921636	1e-131	AY921636.1 Betula platyphylla squamosa promoter binding-like protein mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018814874.1	1e-131	PREDICTED: squamosa promoter-binding protein 1-like
Swissprot	Q9S7A9	1e-46	SPL4_ARATH; Squamosa promoter-binding-like protein 4
TrEMBL	A0A2I4E643	1e-129	A0A2I4E643_JUGRE; squamosa promoter-binding protein 1-like
STRING	VIT_12s0028g03350.t01	3e-82	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF535	34	153

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G53160.2	5e-48	squamosa promoter binding protein-like 4

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] Hyun Y, et al. Site-directed mutagenesis in Arabidopsis thaliana using dividing tissue-targeted RGEN of the CRISPR/Cas system to generate heritable null alleles. Planta, 2015. 241(1): p. 271-84 [PMID:25269397] 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] Ioannidi E, et al. Trichome patterning control involves TTG1 interaction with SPL transcription factors. Plant Mol. Biol., 2016. 92(6): p. 675-687 [PMID:27631431] Jung JH,Lee HJ,Ryu JY,Park CM SPL3/4/5 Integrate Developmental Aging and Photoperiodic Signals into the FT-FD Module in Arabidopsis Flowering. Mol Plant, 2016. 9(12): p. 1647-1659 [PMID:27815142]