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

RrC718_p6

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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: 799aa MW: 89128.6 Da PI: 6.6559

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC718_p6	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	135.6	1.5e-42	75	152	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +Cqve+Ceadls++k+yhrrhkvCe+hska+++lv g++qrfCqqCsrfh l+efDe+krsCrrrLa+hn+rrrk+++ RrC718_p6 75 VCQVENCEADLSKVKDYHRRHKVCEMHSKATSALVGGIMQRFCQQCSRFHVLEEFDEGKRSCRRRLAGHNKRRRKTNP 152 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	1.3E-34	69	137	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.582	73	150	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	2.22E-39	75	154	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	4.4E-31	76	149	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: 799 aa Download sequence Send to blast
MEARIEGEGQ HFYGYRAMDV RSVGKRSVEW DLNDWKWDGD LFVATPLNPG ASRNSAAAKK 60 TKFGGGGGGV ANRSVCQVEN CEADLSKVKD YHRRHKVCEM HSKATSALVG GIMQRFCQQC 120 SRFHVLEEFD EGKRSCRRRL AGHNKRRRKT NPEPGANGNP LSDDHQSSNL LLITLLKILS 180 NMHSSGSDHP GDQDLMPHLL KSLVSHAGEQ LGKNLVELLL QGGGSQASGL LAVEQAPQED 240 LKQAPQLPRQ ELYANGTASG NRSEKQARVN DFDLNDIYID SDDGTDIERS SPPPTNPATS 300 SPDYPSWIHQ TSPPQTTRNS DSASDQSPSS SSEDAQMRTG RIVFKLFGKE PNDFPVVLRG 360 QILDWLSHTP TDIESYIRPG CIVLTIYLRQ AETAWDELSD DMGFSLSKLL DLSDDPLWTT 420 GWIYVRVQNQ YAFVSDGQVV VDTSLPLRSR DYSHITSVRP LAVAATGKAQ FTVKGINLRR 480 PGTRLLCAVE GKYLTQETTK ENDDLKESND IVECVNFSCD LPITSGRGFM EIEDQGLSSS 540 FFPFIVVEED DVCSEIRVLE TTLEFTGTDS AKQAMEFIHE LGWLLQRSKL GVFPLTRFKW 600 LIEFSMDREW CAVIRKLLNM FFEGAVGDYS SSSPSDAALS ELCLLHRAVR KNSKPMVGIG 660 AWRTSRDSTG FTPEDYARLR GHFSYIHLIQ RKINKKSATE DHVVVNIPAS ISDREQKETK 720 PGSSALEITH GNHKLQCKLC DHKLVYGTGR RSVAYRPAML SMVAIAAVCV CVALLFKSCP 780 EVLYVFQPFR WELLDYGTR

Sequence ? help Back to Top

Protein Sequence Length: 799 aa Download sequence Send to blast

MEARIEGEGQ HFYGYRAMDV RSVGKRSVEW DLNDWKWDGD LFVATPLNPG ASRNSAAAKK  60
TKFGGGGGGV ANRSVCQVEN CEADLSKVKD YHRRHKVCEM HSKATSALVG GIMQRFCQQC  120
SRFHVLEEFD EGKRSCRRRL AGHNKRRRKT NPEPGANGNP LSDDHQSSNL LLITLLKILS  180
NMHSSGSDHP GDQDLMPHLL KSLVSHAGEQ LGKNLVELLL QGGGSQASGL LAVEQAPQED  240
LKQAPQLPRQ ELYANGTASG NRSEKQARVN DFDLNDIYID SDDGTDIERS SPPPTNPATS  300
SPDYPSWIHQ TSPPQTTRNS DSASDQSPSS SSEDAQMRTG RIVFKLFGKE PNDFPVVLRG  360
QILDWLSHTP TDIESYIRPG CIVLTIYLRQ AETAWDELSD DMGFSLSKLL DLSDDPLWTT  420
GWIYVRVQNQ YAFVSDGQVV VDTSLPLRSR DYSHITSVRP LAVAATGKAQ FTVKGINLRR  480
PGTRLLCAVE GKYLTQETTK ENDDLKESND IVECVNFSCD LPITSGRGFM EIEDQGLSSS  540
FFPFIVVEED DVCSEIRVLE TTLEFTGTDS AKQAMEFIHE LGWLLQRSKL GVFPLTRFKW  600
LIEFSMDREW CAVIRKLLNM FFEGAVGDYS SSSPSDAALS ELCLLHRAVR KNSKPMVGIG  660
AWRTSRDSTG FTPEDYARLR GHFSYIHLIQ RKINKKSATE DHVVVNIPAS ISDREQKETK  720
PGSSALEITH GNHKLQCKLC DHKLVYGTGR RSVAYRPAML SMVAIAAVCV CVALLFKSCP  780
EVLYVFQPFR WELLDYGTR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	3e-32	66	149	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. Binds specifically to the 5'-GTAC-3' core sequence. {ECO:0000269\|PubMed:10524240, ECO:0000269\|PubMed:16095614}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00603	PBM	Transfer from AT2G47070	Download

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	KC815948	0.0	KC815948.1 Arabis alpina SQUAMOSA promoter binding protein-like protein 1 (SPL1) gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018439364.1	0.0	PREDICTED: squamosa promoter-binding-like protein 1
Refseq	XP_018439365.1	0.0	PREDICTED: squamosa promoter-binding-like protein 1
Swissprot	Q9SMX9	0.0	SPL1_ARATH; Squamosa promoter-binding-like protein 1
TrEMBL	V4N2D6	0.0	V4N2D6_EUTSA; Uncharacterized protein
STRING	XP_006397898.1	0.0	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3030	27	64

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47070.1	0.0	squamosa promoter binding protein-like 1

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] Chao LM, et al. Arabidopsis Transcription Factors SPL1 and SPL12 Confer Plant Thermotolerance at Reproductive Stage. Mol Plant, 2017. 10(5): p. 735-748 [PMID:28400323]