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

Cagra.0483s0035.1.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 355aa MW: 39138.1 Da PI: 5.7376

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.0483s0035.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	25	3.3e-08	175	216	9	55
HHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 9 ErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 Er+ R++iN+++ +L++llP++ +K + ++L +A++Y+ +Lq Cagra.0483s0035.1.p 175 ERKQRNDINKKMRTLQDLLPNC-----RKDDNESMLGEAINYMTNLQ 216 9******************9.....8**************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	1.32E-7	162	220	No hit	No description
PROSITE profile	PS50888	12.379	166	215	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.2E-5	172	221	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	9.95E-13	174	233	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.0E-11	175	226	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.6E-6	175	216	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
MELVFENGQI LAKGQRSDLS LQNPRTKSIM DLYEAEYNED FLKSINNFGD TQVVLQNHLV 60 AAPDTNMLES DKHVDGSTLI ETFKASSSKR MTMNYFNRKK IEFLPPDEQS VVAERTVESS 120 FDTSSAGFTE DSQGSTYLSS SLDEESDDGR PRVSERTRKA LVKRKRNAEA CHSPERKQRN 180 DINKKMRTLQ DLLPNCRKDD NESMLGEAIN YMTNLQLQVQ MMTMGNRFVT PSTLLPLGTH 240 YSQMGVAMGM GMQMGAPQFL PGPILGAGLP GINNSANMLT FLNHPGLAPM QNSAPFTPTE 300 KCSPQSVWPS YATFPDQIPN PTILSTLDGA TPYTRNQGTL TDGGFLSGKK SGNP*

Sequence ? help Back to Top

Protein Sequence Length: 355 aa Download sequence Send to blast

MELVFENGQI LAKGQRSDLS LQNPRTKSIM DLYEAEYNED FLKSINNFGD TQVVLQNHLV  60
AAPDTNMLES DKHVDGSTLI ETFKASSSKR MTMNYFNRKK IEFLPPDEQS VVAERTVESS  120
FDTSSAGFTE DSQGSTYLSS SLDEESDDGR PRVSERTRKA LVKRKRNAEA CHSPERKQRN  180
DINKKMRTLQ DLLPNCRKDD NESMLGEAIN YMTNLQLQVQ MMTMGNRFVT PSTLLPLGTH  240
YSQMGVAMGM GMQMGAPQFL PGPILGAGLP GINNSANMLT FLNHPGLAPM QNSAPFTPTE  300
KCSPQSVWPS YATFPDQIPN PTILSTLDGA TPYTRNQGTL TDGGFLSGKK SGNP*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.0483s0035.1.p

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_023638997.1	0.0	LOW QUALITY PROTEIN: transcription factor PIF6
Swissprot	Q8L5W7	1e-178	PIF6_ARATH; Transcription factor PIF6
TrEMBL	R0HJ56	0.0	R0HJ56_9BRAS; Uncharacterized protein (Fragment)
STRING	Cagra.0483s0035.1.p	0.0	(Capsella grandiflora)

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
AT3G62090.1	1e-158	phytochrome interacting factor 3-like 2

Link Out ? help Back to Top
Phytozome	Cagra.0483s0035.1.p

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]