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

Csa16g030470.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina

Family

SBP

Protein Properties

Length: 422aa MW: 47430.4 Da PI: 6.6905

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa16g030470.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	134.2	4e-42	140	215	2	77
-SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 Cqv gC+ dls+ k+yh+rh+vC++hsk++vv+v+gleqrfCqqCsrfh lsefD++krsCrrrLa+hnerrrk++ Csa16g030470.1 140 CQVYGCNLDLSSSKDYHKRHRVCDTHSKTSVVIVNGLEQRFCQQCSRFHFLSEFDDGKRSCRRRLAGHNERRRKPA 215 **************************************************************************85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	5.5E-33	135	201	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.735	137	214	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.44E-39	138	217	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	3.6E-32	140	213	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010468	Biological Process	regulation of gene expression
GO:0042742	Biological Process	defense response to bacterium
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 422 aa Download sequence Send to blast
MDSWSYGRSV FLGNGTLLPS DSFAENRNFG QSLSNRLEND DDDDHHHVLI SDLAGDSNGF 60 SAVSIRKVVP SNLLHEEVEE EEEKQSSSSS KFSSQELSRI DFKLRNLLDL GNNDDTSSSG 120 FALPAKKPRA SNLCSQKPLC QVYGCNLDLS SSKDYHKRHR VCDTHSKTSV VIVNGLEQRF 180 CQQCSRFHFL SEFDDGKRSC RRRLAGHNER RRKPAFYYLP GKRHKLLRTS QGVVGNKFLE 240 NSSVNDFSLV LPEEFPGTFL YRVIDEHDHH ASSRLVSFKD EPTCSMFPAV GQNSSRIYES 300 KPAVHSPEVS SIWDLHESAS RSTCALSLLS AQSQQQHIPE TPNTTFSITQ PNHSPVDFNQ 360 MERLWIDPGK TNPAGSSSCT VKGSSTVDLL QLSSHLQRIE QQRNFTDDVK QEYNELYFTG 420 S*

Sequence ? help Back to Top

Protein Sequence Length: 422 aa Download sequence Send to blast

MDSWSYGRSV FLGNGTLLPS DSFAENRNFG QSLSNRLEND DDDDHHHVLI SDLAGDSNGF  60
SAVSIRKVVP SNLLHEEVEE EEEKQSSSSS KFSSQELSRI DFKLRNLLDL GNNDDTSSSG  120
FALPAKKPRA SNLCSQKPLC QVYGCNLDLS SSKDYHKRHR VCDTHSKTSV VIVNGLEQRF  180
CQQCSRFHFL SEFDDGKRSC RRRLAGHNER RRKPAFYYLP GKRHKLLRTS QGVVGNKFLE  240
NSSVNDFSLV LPEEFPGTFL YRVIDEHDHH ASSRLVSFKD EPTCSMFPAV GQNSSRIYES  300
KPAVHSPEVS SIWDLHESAS RSTCALSLLS AQSQQQHIPE TPNTTFSITQ PNHSPVDFNQ  360
MERLWIDPGK TNPAGSSSCT VKGSSTVDLL QLSSHLQRIE QQRNFTDDVK QEYNELYFTG  420
S*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	8e-30	139	213	10	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa16g030470.1

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF370612	0.0	AF370612.1 Arabidopsis thaliana similar to squamosa-promoter binding protein 1 isolog gi\|1707009 (F4N2.13) mRNA, complete cds.
GenBank	AJ011643	0.0	AJ011643.1 Arabidopsis thaliana (ecotype Columbia) mRNA for squamosa promoter binding protein-like 6.
GenBank	AK227964	0.0	AK227964.1 Arabidopsis thaliana mRNA for squamosa promoter binding protein-like 6, complete cds, clone: RAFL14-51-E10.
GenBank	BT006436	0.0	BT006436.1 Arabidopsis thaliana At1g69170 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010470888.1	0.0	PREDICTED: squamosa promoter-binding-like protein 6
Refseq	XP_010470889.1	0.0	PREDICTED: squamosa promoter-binding-like protein 6
Swissprot	Q94JW8	0.0	SPL6_ARATH; Squamosa promoter-binding-like protein 6
TrEMBL	R0IA10	0.0	R0IA10_9BRAS; Uncharacterized protein
STRING	XP_010470888.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9275	24	35

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G69170.1	0.0	SBP family protein

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] 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]