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

XP_013590173.1

Organism

Brassica oleracea

Taxonomic ID

3712

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 357aa MW: 40243.1 Da PI: 6.6396

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013590173.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	26.7	9.7e-09	192	236	6	55
HHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 6 nerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 n E++ R++iN+++ +L+ llP++ +K + ++L +A++Y+ Lq XP_013590173.1 192 NSSEKKQRSDINKKMRKLQNLLPNS-----GKDDNESTLDEAINYMTTLQ 236 678*******************9.....9*************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	8.73E-8	181	240	No hit	No description
PROSITE profile	PS50888	12.277	186	235	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	5.89E-13	191	257	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.9E-7	192	241	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.3E-6	192	236	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.2E-10	192	247	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: 357 aa Download sequence Send to blast
MTSPSSSTFR PKLTDQEYME LVFENGQFLA KSQRSKAFSL ENQRTKSIVD LYEDEYNEDF 60 KKSIIHGAXI RSYRFVPEHH VVIVAAYETK MLMNHHLNLV QSLKASSSKR IVVDYENRKD 120 NEFIPPDEQS VVAERSVELG FDSTDFTEDS EGSTYISSSV DDESDDPRPR VPARTRKSFV 180 KRRRINSNEL YNSSEKKQRS DINKKMRKLQ NLLPNSGKDD NESTLDEAIN YMTTLQLQVQ 240 MMTMSNRFVA PAMMLPLGPH YSQMGLPTCM QMGLPQFLPS PVLGSGGNSA DMLRFLNHPT 300 GLITPMQNSA LFTPMGNYFP QSVPPSCAAF PNQIQNSTSL SNLDDARTDG GSLSGKK

Sequence ? help Back to Top

Protein Sequence Length: 357 aa Download sequence Send to blast

MTSPSSSTFR PKLTDQEYME LVFENGQFLA KSQRSKAFSL ENQRTKSIVD LYEDEYNEDF  60
KKSIIHGAXI RSYRFVPEHH VVIVAAYETK MLMNHHLNLV QSLKASSSKR IVVDYENRKD  120
NEFIPPDEQS VVAERSVELG FDSTDFTEDS EGSTYISSSV DDESDDPRPR VPARTRKSFV  180
KRRRINSNEL YNSSEKKQRS DINKKMRKLQ NLLPNSGKDD NESTLDEAIN YMTTLQLQVQ  240
MMTMSNRFVA PAMMLPLGPH YSQMGLPTCM QMGLPQFLPS PVLGSGGNSA DMLRFLNHPT  300
GLITPMQNSA LFTPMGNYFP QSVPPSCAAF PNQIQNSTSL SNLDDARTDG GSLSGKK

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	180	184	KRRRI

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013590173.1

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	AB493661	3e-49	AB493661.1 Arabidopsis thaliana At3g62090 mRNA for hypothetical protein, partial cds, clone: RAAt3g62090.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013590173.1	0.0	PREDICTED: LOW QUALITY PROTEIN: transcription factor PIF6-like
Swissprot	Q8L5W7	1e-146	PIF6_ARATH; Transcription factor PIF6
TrEMBL	A0A3P6BGS4	0.0	A0A3P6BGS4_BRACM; Uncharacterized protein
STRING	Bo6g079220.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13423	14	25

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G62090.2	1e-149	phytochrome interacting factor 3-like 2

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] Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Adams E,Diaz C,Hong JP,Shin R 14-3-3 proteins participate in light signaling through association with PHYTOCHROME INTERACTING FACTORs. Int J Mol Sci, 2014. 15(12): p. 22801-14 [PMID:25501334] Galvão VC,Collani S,Horrer D,Schmid M Gibberellic acid signaling is required for ambient temperature-mediated induction of flowering in Arabidopsis thaliana. Plant J., 2015. 84(5): p. 949-62 [PMID:26466761] Gomez EJ,Gerhardt K,Judd J,Tabor JJ,Suh J Light-Activated Nuclear Translocation of Adeno-Associated Virus Nanoparticles Using Phytochrome B for Enhanced, Tunable, and Spatially Programmable Gene Delivery. ACS Nano, 2016. 10(1): p. 225-37 [PMID:26618393] Ochoa-Fernandez R, et al. Optogenetics in Plants: Red/Far-Red Light Control of Gene Expression. Methods Mol. Biol., 2016. 1408: p. 125-39 [PMID:26965120] Gangl R,Tenhaken R Raffinose Family Oligosaccharides Act As Galactose Stores in Seeds and Are Required for Rapid Germination of Arabidopsis in the Dark. Front Plant Sci, 2016. 7: p. 1115 [PMID:27507985] Paik I,Kathare PK,Kim JI,Huq E Expanding Roles of PIFs in Signal Integration from Multiple Processes. Mol Plant, 2017. 10(8): p. 1035-1046 [PMID:28711729]