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

RrC618_p3

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: 338aa MW: 37459 Da PI: 8.7253

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC618_p3	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	125	3.2e-39	194	271	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +Cq+e+C+adls+ak+yhrrhkvCe+hska++v+++gl+qrfCqqCsrfh lsefD++krsCr+rLa+hn+rrrk ++ RrC618_p3 194 RCQAERCNADLSHAKHYHRRHKVCEFHSKASTVVAAGLSQRFCQQCSRFHLLSEFDNGKRSCRKRLADHNRRRRKCHQ 271 6*************************************************************************9865 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	2.9E-34	189	256	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	31.77	192	269	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.08E-36	193	270	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	5.2E-29	195	268	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: 338 aa Download sequence Send to blast
MLDYEWDNPS AIMVSGEEQR HHHHHQDLDP TRALSIYEST HTNHHQSSYN NFSPPLFSSL 60 SNQQHLTVLY GHHHHQTAHI PTNQFHHSFY DANPYASSPD SIYHAHSSAS ALFSSFDQTG 120 PAGSGSSSYN FLIPKTEGDV VSRSPLDFST SNRIGLNLGG RTYFSAGDDD FVSRLYRRSR 180 TGELGMGSTT ATPRCQAERC NADLSHAKHY HRRHKVCEFH SKASTVVAAG LSQRFCQQCS 240 RFHLLSEFDN GKRSCRKRLA DHNRRRRKCH QAASASGKHA TDIINTPKSA NDSGLKSSSA 300 SPSPSNAPTT ISLECFRQTT ASSSTSAIWG SLAPTYNI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	1e-31	185	268	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'. Binds specifically to the 5'-GTAC-3' core sequence. Involved in development and floral organogenesis. Required for ovule differentiation, pollen production, filament elongation, seed formation and siliques elongation. Also seems to play a role in the formation of trichomes on sepals. May positively modulate gibberellin (GA) signaling in flower. {ECO:0000269\|PubMed:12671094, ECO:0000269\|PubMed:16095614, ECO:0000269\|PubMed:17093870}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018489258.1	0.0	PREDICTED: squamosa promoter-binding-like protein 8
Swissprot	Q8GXL3	1e-119	SPL8_ARATH; Squamosa promoter-binding-like protein 8
TrEMBL	A0A078HML5	0.0	A0A078HML5_BRANA; BnaCnng09040D protein
TrEMBL	A0A3P6GTE1	0.0	A0A3P6GTE1_BRAOL; Uncharacterized protein
STRING	Bo8g118210.1	1e-180	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7010	27	43

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G02065.1	1e-114	squamosa promoter binding protein-like 8

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] Xing S, et al. SPL8 Acts Together with the Brassinosteroid-Signaling Component BIM1 in Controlling Arabidopsis thaliana Male Fertility. Plants (Basel), 2013. 2(3): p. 416-28 [PMID:27137384]