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

Csa11g004450.1

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

bHLH

Protein Properties

Length: 359aa MW: 38414.4 Da PI: 6.5716

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa11g004450.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	50.9	2.8e-16	185	231	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hn E+rRR+riN+++ L++l+P++ K +Ka++L +A+eY+k+Lq Csa11g004450.1 185 VHNLSEKRRRSRINEKMKALQSLIPNS-----NKTDKASMLDEAIEYLKQLQ 231 6***********************7.....5****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	4.28E-18	178	235	No hit	No description
SuperFamily	SSF47459	5.1E-20	179	241	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	18.063	181	230	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	3.9E-19	185	241	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	9.9E-14	185	231	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.0E-18	187	236	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 359 aa Download sequence Send to blast
MGDKKLISSS SSSSSIYDTR NHHHQPPPSS SSDEISLFLR HIFDRSSPNL PSYYSPATTA 60 TTMIGVHGDP HADNSRCFVS DAAAAALMSS KRVGDFSEVL VGGSSAVGSA STAACFGFNN 120 SNAQGNSSGT TRVSSSSVGA SGNETDEYDC ESEEGGEAVV DEAPSSKSGG PPSRSSSKRC 180 RAAEVHNLSE KRRRSRINEK MKALQSLIPN SNKTDKASML DEAIEYLKQL QLQVQMLTMR 240 NGINLHPLCL PGTTLHPLQL SQIRPPEATN DPMLNHTNQF ASTSNAPEMI NTVASSYALE 300 PSIRSHFGPF PLLTPPVEMN REGGLTHQRL NIGHSNTNLT GEQAVFDGQQ PDLKDRLT*

Sequence ? help Back to Top

Protein Sequence Length: 359 aa Download sequence Send to blast

MGDKKLISSS SSSSSIYDTR NHHHQPPPSS SSDEISLFLR HIFDRSSPNL PSYYSPATTA  60
TTMIGVHGDP HADNSRCFVS DAAAAALMSS KRVGDFSEVL VGGSSAVGSA STAACFGFNN  120
SNAQGNSSGT TRVSSSSVGA SGNETDEYDC ESEEGGEAVV DEAPSSKSGG PPSRSSSKRC  180
RAAEVHNLSE KRRRSRINEK MKALQSLIPN SNKTDKASML DEAIEYLKQL QLQVQMLTMR  240
NGINLHPLCL PGTTLHPLQL SQIRPPEATN DPMLNHTNQF ASTSNAPEMI NTVASSYALE  300
PSIRSHFGPF PLLTPPVEMN REGGLTHQRL NIGHSNTNLT GEQAVFDGQQ PDLKDRLT*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that plays a role in floral organogenesis. Promotes the growth of carpel margins and of pollen tract tissues derived from them. {ECO:0000269\|PubMed:10225997, ECO:0000269\|Ref.8}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa11g004450.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by the A class gene AP2 in the first whorl and by ARF3/ETT in gynoecium. {ECO:0000269\|PubMed:11245574}.

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	AF319540	0.0	AF319540.1 Arabidopsis thaliana SPATULA (SPT) mRNA, complete cds.
GenBank	AK229267	0.0	AK229267.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor (AtbHLH024) / SPATULA (SPT), complete cds, clone: RAFL16-54-P05.
GenBank	BT026462	0.0	BT026462.1 Arabidopsis thaliana At4g36930 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010437251.1	0.0	PREDICTED: transcription factor SPATULA-like isoform X1
Swissprot	Q9FUA4	1e-177	SPT_ARATH; Transcription factor SPATULA
TrEMBL	R0GJ30	0.0	R0GJ30_9BRAS; Uncharacterized protein
STRING	XP_010437251.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4199	27	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36930.1	1e-163	bHLH family protein

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Pabón-Mora N,Wong GK,Ambrose BA Evolution of fruit development genes in flowering plants. Front Plant Sci, 2014. 5: p. 300 [PMID:25018763] Moubayidin L,Ostergaard L Dynamic control of auxin distribution imposes a bilateral-to-radial symmetry switch during gynoecium development. Curr. Biol., 2014. 24(22): p. 2743-8 [PMID:25455035] Pfannebecker KC,Lange M,Rupp O,Becker A Seed Plant-Specific Gene Lineages Involved in Carpel Development. Mol. Biol. Evol., 2017. 34(4): p. 925-942 [PMID:28087776] Zumajo-Cardona C,Ambrose BA,Pabón-Mora N Evolution of the SPATULA/ALCATRAZ gene lineage and expression analyses in the basal eudicot, Bocconia frutescens L. (Papaveraceae). Evodevo, 2017. 8: p. 5 [PMID:28331573] Reyes-Olalde JI, et al. The bHLH transcription factor SPATULA enables cytokinin signaling, and both activate auxin biosynthesis and transport genes at the medial domain of the gynoecium. PLoS Genet., 2017. 13(4): p. e1006726 [PMID:28388635] Wu M, et al. SPATULA regulates floral transition and photomorphogenesis in a PHYTOCHROME B-dependent manner in Arabidopsis. Biochem. Biophys. Res. Commun., 2018. 503(4): p. 2380-2385 [PMID:29966653]