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_013615363.1

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: 355aa MW: 39671.9 Da PI: 4.9653

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013615363.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	12.3	0.00032	188	225	13	55
HHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 13 RdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 ++ N+++ +L++llP++ +K + + L +A++Y+ Lq XP_013615363.1 188 TNDTNKKMRNLQDLLPNS-----QKDDNEALLDEAINYMTTLQ 225 4679***********9.....8*************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	2.03E-4	173	229	No hit	No description
Gene3D	G3DSA:4.10.280.10	1.6E-7	173	236	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	9.521	175	224	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.31E-8	179	239	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010017	Biological Process	red or far-red light signaling pathway
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 355 aa Download sequence Send to blast
MQMMFVLTKL IYCCCRLTDQ EYMELVFENG QILAKSQRSN GFSMHNQRTK SIVDLYEAEY 60 NEDFKKTIHG ADTSDKNLVD TQVVPEPLVV AAYETNMLMN QLNLIQSLKA SSSKRMVVDY 120 ENRKDIVPPD EQSVVAERSV ELGYDSTDFT EDSEESTYQS SRLDDVRPQV PARTSNVLVK 180 RRRKQKQTND TNKKMRNLQD LLPNSQKDDN EALLDEAINY MTTLQHQVQM MTMGNRFVTP 240 ATMLPLGPQY SQMGLATGMQ MGVPQLLPAP VLGAGLPLVS TSADVLRVLN HPVGPVLMPI 300 QNSALFTPTE NYLPQSVPPA YAAFPNQIPN STTSSNLDDA RTHGGNLSGK ESDKP

Sequence ? help Back to Top

Protein Sequence Length: 355 aa Download sequence Send to blast

MQMMFVLTKL IYCCCRLTDQ EYMELVFENG QILAKSQRSN GFSMHNQRTK SIVDLYEAEY  60
NEDFKKTIHG ADTSDKNLVD TQVVPEPLVV AAYETNMLMN QLNLIQSLKA SSSKRMVVDY  120
ENRKDIVPPD EQSVVAERSV ELGYDSTDFT EDSEESTYQS SRLDDVRPQV PARTSNVLVK  180
RRRKQKQTND TNKKMRNLQD LLPNSQKDDN EALLDEAINY MTTLQHQVQM MTMGNRFVTP  240
ATMLPLGPQY SQMGLATGMQ MGVPQLLPAP VLGAGLPLVS TSADVLRVLN HPVGPVLMPI  300
QNSALFTPTE NYLPQSVPPA YAAFPNQIPN STTSSNLDDA RTHGGNLSGK ESDKP

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	178	185	VKRRRKQK

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013615363.1

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	AC172877	0.0	AC172877.1 Brassica rapa subsp. oleifera cultivar Inbred line 'Chiifu' clone KBrH042F19, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013605863.1	0.0	PREDICTED: transcription factor PIF6 isoform X1
Refseq	XP_013615363.1	0.0	PREDICTED: transcription factor PIF6-like isoform X1
Refseq	XP_013712402.1	0.0	transcription factor PIF6-like isoform X1
Refseq	XP_022564169.1	0.0	transcription factor PIF6-like isoform X1
Swissprot	Q8L5W7	1e-150	PIF6_ARATH; Transcription factor PIF6
TrEMBL	A0A0D3DV12	0.0	A0A0D3DV12_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6FJ66	0.0	A0A3P6FJ66_BRAOL; Uncharacterized protein
STRING	Bo02373s010.1	0.0	(Brassica oleracea)
STRING	Bo8g097630.1	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-141	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]