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

AT3G17609.2

Common Name

BZIP64, HYH, MKP6.27

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

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

Family

bZIP

Protein Properties

Length: 149aa MW: 16898.7 Da PI: 9.1272

Description

HY5-homolog

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT3G17609.2	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	bZIP_1	41.6	2.7e-13	77	136	2	61
XXXCHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS bZIP_1 2 kelkrerrkqkNReAArrsRqRKkaeieeLeekvkeLeaeNkaLkkeleelkkevaklks 61 ke + +r+ +NR++A+ R+RKk ++ Le ++ eL++ N++L +++++l++e l++ AT3G17609.2 77 KEYRSLKRLLRNRVSAQQARERKKVYVSDLESRANELQNNNDQLEEKISTLTNENTMLRK 136 778889***********************************************9987765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00338	7.6E-13	76	140	IPR004827	Basic-leucine zipper domain
Pfam	PF00170	1.2E-12	77	136	IPR004827	Basic-leucine zipper domain
PROSITE profile	PS50217	11.565	78	141	IPR004827	Basic-leucine zipper domain
SuperFamily	SSF57959	1.38E-13	80	138	No hit	No description
CDD	cd14704	4.46E-15	82	131	No hit	No description
Gene3D	G3DSA:1.20.5.170	3.2E-17	82	139	No hit	No description
PROSITE pattern	PS00036	0	83	98	IPR004827	Basic-leucine zipper domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009585	Biological Process	red, far-red light phototransduction
GO:0010224	Biological Process	response to UV-B
GO:0080167	Biological Process	response to karrikin
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000013	anatomy	cauline leaf
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0008019	anatomy	leaf lamina base
PO:0009006	anatomy	shoot system
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009030	anatomy	carpel
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0020030	anatomy	cotyledon
PO:0020038	anatomy	petiole
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0001054	developmental stage	vascular leaf senescent stage
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007064	developmental stage	LP.12 twelve leaves visible stage
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007098	developmental stage	LP.02 two leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007123	developmental stage	LP.06 six leaves visible stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 149 aa Download sequence Send to blast
MSLQRPNGNS SSSSSHKKHK TEESDEELLM VPDMEAAGST CVLSSSADDG VNNPELDQTQ 60 NGVSTAKRRR GRNPVDKEYR SLKRLLRNRV SAQQARERKK VYVSDLESRA NELQNNNDQL 120 EEKISTLTNE NTMLRKMLIN TRPKTDDNH

Expression -- Microarray ? help Back to Top
Source	ID	E-value
Genevisible	258349_at	0.0
Expression Atlas	AT3G17609	-
AtGenExpress	AT3G17609	-
ATTED-II	AT3G17609	-

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a homolog of HY5 (HYH). Involved in phyB signaling pathway.
UniProt	Transcription factor that promotes photomorphogenesis in light. Acts downstream of the light receptor network and directly affects transcription of light-induced genes. Specifically involved in the blue light specific pathway, suggesting that it participates in transmission of cryptochromes (CRY1 and CRY2) signals to downstream responses. In darkness, its degradation prevents the activation of light-induced genes. {ECO:0000269\|PubMed:12023303}.

Function -- GeneRIF ? help Back to Top
The data support the hypothesis that the opposite root system phenotypes of hy5 single and hy5 hyh double mutants represent the morphological response to a quantitative gradient in the same molecular process. [PMID: 17121469] important for high nitrate reductase expression in red light [PMID: 17929051] This research provides evidence that, in ultraviolet B (UV-B) signaling, UVR8, HY5, and HYH act together and demonstrates a new role for HYH in UV-B responses. [PMID: 18055587] HYH and PEX11b constitute a novel branch of the phyA-mediated light signaling cascade, which promotes peroxisome proliferation during seedling photomorphogenesis. [PMID: 18203870] HY5 and HYH were activators of NIA2, but inhibitors of NRT1.1 when tested across various light treatments and tissue types. [PMID: 19540016] HY5 and HYH are two necessary regulators that play a pivotal role during low temperature-induced anthocyanin accumulation in Arabidopsis seedlings. [PMID: 20932601] Together with HY5/HYH, gibberellins signaling may play an important role during low temperature-induced anthocyanin accumulation. [PMID: 21636970] light triggers MSBP1 expression through direct binding to and activation by HY5 and HYH. [PMID: 21715650] the functional interrelations of GBF1 with HY5 and HYH in Arabidopsis seedling development. [PMID: 22692212] Data indicate that the PIF1/PIF3-HY5/HYH transcriptional modules mediate crosstalk between light and ROS signaling and a mechanism by which plants adapt to the light environments. [PMID: 23645630] BBX24 and BBX25 physically interact with HYH. [PMID: 23733077] The DNA binding activity of GBF1 is modulated by heterodimeriation with HY5 and HYH. [PMID: 24157608] This study further reveals that MYC2 and GBF1 bind to HYH promoter and inhibit each other through non-DNA binding bHLH-bZIP heterodimers. [PMID: 26047210] light affected TCP2 expression in a wavelength-dependent manner and TCP2 positively regulates mRNA expression of HYH and HY5. [PMID: 26596765] It has been reported that HY5 regulates HYH expression in roots and contributes to root growth under different light conditions. [PMID: 28683099] Genetic analyses reveal that RSM1 mediates multiple functions of HY5 in responses of seed germination, post-germination development to ABA and abiotic stresses, and seedling tolerance to salinity. Pull-down and BiFC assays show that RSM1 interacts with HY5/HYH in vitro and in vivo. RSM1 and HY5/HYH may function as a regulatory module in responses to ABA and abiotic stresses. [PMID: 30566447]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT3G17609.2

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source	Target Gene (A: Activate/R: Repress)
ATRM	AT1G12110(R), AT1G12370(A), AT1G37130(A), AT3G22840(A), AT3G47430(A), AT5G13930(A)

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT4G36730, AT5G11260, AT1G09530
IntAct	Search Q8W191

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT3G17609

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF453477	0.0	AF453477.1 Arabidopsis thaliana HY5-like protein (HYH) mRNA, complete cds.
GenBank	AK175440	0.0	AK175440.1 Arabidopsis thaliana mRNA for bZip transcription factor AtbZip64, complete cds, clone: RAFL21-87-C16.
GenBank	AK175523	0.0	AK175523.1 Arabidopsis thaliana mRNA for bZip transcription factor AtbZip64, complete cds, clone: RAFL21-94-F18.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_850605.1	1e-105	HY5-homolog
Swissprot	Q8W191	1e-106	HYH_ARATH; Transcription factor HY5-like
TrEMBL	A0A178VIU6	1e-104	A0A178VIU6_ARATH; HYH
STRING	AT3G17609.2	1e-104	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10266	18	29
Representative plant	OGRP2081	17	37

Link Out ? help Back to Top
Phytozome	AT3G17609.2
Entrez Gene	821027
iHOP	AT3G17609
wikigenes	AT3G17609

Publications ? help Back to Top
Jakoby M, et al. bZIP transcription factors in Arabidopsis. Trends Plant Sci., 2002. 7(3): p. 106-11 [PMID:11906833] Holm M,Ma LG,Qu LJ,Deng XW Two interacting bZIP proteins are direct targets of COP1-mediated control of light-dependent gene expression in Arabidopsis. Genes Dev., 2002. 16(10): p. 1247-59 [PMID:12023303] Subramanian C, et al. A suite of tools and application notes for in vivo protein interaction assays using bioluminescence resonance energy transfer (BRET). Plant J., 2006. 48(1): p. 138-52 [PMID:16925598] Sibout R, et al. Opposite root growth phenotypes of hy5 versus hy5 hyh mutants correlate with increased constitutive auxin signaling. PLoS Genet., 2006. 2(11): p. e202 [PMID:17121469] Vandenbussche F, et al. HY5 is a point of convergence between cryptochrome and cytokinin signalling pathways in Arabidopsis thaliana. Plant J., 2007. 49(3): p. 428-41 [PMID:17217468] Jonassen EM,Lea US,Lillo C HY5 and HYH are positive regulators of nitrate reductase in seedlings and rosette stage plants. Planta, 2008. 227(3): p. 559-64 [PMID:17929051] Brown BA,Jenkins GI UV-B signaling pathways with different fluence-rate response profiles are distinguished in mature Arabidopsis leaf tissue by requirement for UVR8, HY5, and HYH. Plant Physiol., 2008. 146(2): p. 576-88 [PMID:18055587] Desai M,Hu J Light induces peroxisome proliferation in Arabidopsis seedlings through the photoreceptor phytochrome A, the transcription factor HY5 HOMOLOG, and the peroxisomal protein PEROXIN11b. Plant Physiol., 2008. 146(3): p. 1117-27 [PMID:18203870] Safrany J, et al. Identification of a novel cis-regulatory element for UV-B-induced transcription in Arabidopsis. Plant J., 2008. 54(3): p. 402-14 [PMID:18266923] Kumagai T, et al. The common function of a novel subfamily of B-Box zinc finger proteins with reference to circadian-associated events in Arabidopsis thaliana. Biosci. Biotechnol. Biochem., 2008. 72(6): p. 1539-49 [PMID:18540109] Lillo C Signalling cascades integrating light-enhanced nitrate metabolism. Biochem. J., 2008. 415(1): p. 11-9 [PMID:18778247] Datta S, et al. LZF1/SALT TOLERANCE HOMOLOG3, an Arabidopsis B-box protein involved in light-dependent development and gene expression, undergoes COP1-mediated ubiquitination. Plant Cell, 2008. 20(9): p. 2324-38 [PMID:18796637] Jonassen EM,Sévin DC,Lillo C The bZIP transcription factors HY5 and HYH are positive regulators of the main nitrate reductase gene in Arabidopsis leaves, NIA2, but negative regulators of the nitrate uptake gene NRT1.1. J. Plant Physiol., 2009. 166(18): p. 2071-6 [PMID:19540016] Sellaro R,Hoecker U,Yanovsky M,Chory J,Casal JJ Synergism of red and blue light in the control of Arabidopsis gene expression and development. Curr. Biol., 2009. 19(14): p. 1216-20 [PMID:19559617] Hu J,Desai M Light control of peroxisome proliferation during Arabidopsis photomorphogenesis. Plant Signal Behav, 2008. 3(10): p. 801-3 [PMID:19704562] Kaur N,Hu J Dynamics of peroxisome abundance: a tale of division and proliferation. Curr. Opin. Plant Biol., 2009. 12(6): p. 781-8 [PMID:19734083] Gong W, et al. The development of protein microarrays and their applications in DNA-protein and protein-protein interaction analyses of Arabidopsis transcription factors. Mol Plant, 2008. 1(1): p. 27-41 [PMID:19802365] Rubin G,Tohge T,Matsuda F,Saito K,Scheible WR Members of the LBD family of transcription factors repress anthocyanin synthesis and affect additional nitrogen responses in Arabidopsis. Plant Cell, 2009. 21(11): p. 3567-84 [PMID:19933203] Charron JB,He H,Elling AA,Deng XW Dynamic landscapes of four histone modifications during deetiolation in Arabidopsis. Plant Cell, 2009. 21(12): p. 3732-48 [PMID:20008096] Jonassen EM,Sandsmark BA,Lillo C Unique status of NIA2 in nitrate assimilation: NIA2 expression is promoted by HY5/HYH and inhibited by PIF4. Plant Signal Behav, 2009. 4(11): p. 1084-6 [PMID:20009559] Nelson DC, et al. Karrikins enhance light responses during germination and seedling development in Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A., 2010. 107(15): p. 7095-100 [PMID:20351290] Castells E, et al. det1-1-induced UV-C hyposensitivity through UVR3 and PHR1 photolyase gene over-expression. Plant J., 2010. 63(3): p. 392-404 [PMID:20487384] Aung K,Zhang X,Hu J Peroxisome division and proliferation in plants. Biochem. Soc. Trans., 2010. 38(3): p. 817-22 [PMID:20491669] Zhang Y,Zheng S,Liu Z,Wang L,Bi Y Both HY5 and HYH are necessary regulators for low temperature-induced anthocyanin accumulation in Arabidopsis seedlings. J. Plant Physiol., 2011. 168(4): p. 367-74 [PMID:20932601] Fehér B, et al. Functional interaction of the circadian clock and UV RESISTANCE LOCUS 8-controlled UV-B signaling pathways in Arabidopsis thaliana. Plant J., 2011. 67(1): p. 37-48 [PMID:21395889] Zhang Y,Liu Z,Liu R,Hao H,Bi Y Gibberellins negatively regulate low temperature-induced anthocyanin accumulation in a HY5/HYH-dependent manner. Plant Signal Behav, 2011. 6(5): p. 632-4 [PMID:21636970] Shi QM,Yang X,Song L,Xue HW Arabidopsis MSBP1 is activated by HY5 and HYH and is involved in photomorphogenesis and brassinosteroid sensitivity regulation. Mol Plant, 2011. 4(6): p. 1092-104 [PMID:21715650] Lang-Mladek C, et al. UV-B signaling pathways and fluence rate dependent transcriptional regulation of ARIADNE12. Physiol Plant, 2012. 145(4): p. 527-39 [PMID:22188380] Singh A,Ram H,Abbas N,Chattopadhyay S Molecular interactions of GBF1 with HY5 and HYH proteins during light-mediated seedling development in Arabidopsis thaliana. J. Biol. Chem., 2012. 287(31): p. 25995-6009 [PMID:22692212] Xie L,Hauser MT Induction of ARI12 upon broad band UV-B radiation is suppressed by UVR8 and cryptochromes. Plant Signal Behav, 2012. 7(11): p. 1411-4 [PMID:22990446] Ram H,Chattopadhyay S Molecular interaction of bZIP domains of GBF1, HY5 and HYH in Arabidopsis seedling development. Plant Signal Behav, 2013. 8(1): p. e22703 [PMID:23123453] Chen D, et al. Antagonistic basic helix-loop-helix/bZIP transcription factors form transcriptional modules that integrate light and reactive oxygen species signaling in Arabidopsis. Plant Cell, 2013. 25(5): p. 1657-73 [PMID:23645630] Gangappa SN,Holm M,Botto JF Molecular interactions of BBX24 and BBX25 with HYH, HY5 HOMOLOG, to modulate Arabidopsis seedling development. Plant Signal Behav, 2014. [PMID:23733077] Tilbrook K, et al. The UVR8 UV-B Photoreceptor: Perception, Signaling and Response. Arabidopsis Book, 2013. 11: p. e0164 [PMID:23864838] Ciolfi A, et al. Dynamics of the shade-avoidance response in Arabidopsis. Plant Physiol., 2013. 163(1): p. 331-53 [PMID:23893169] Kreslavski VD, et al. Effect of preillumination with red light on photosynthetic parameters and oxidant-/antioxidant balance in Arabidopsis thaliana in response to UV-A. J. Photochem. Photobiol. B, Biol., 2013. 127: p. 229-36 [PMID:24080425] Ram H,Priya P,Jain M,Chattopadhyay S Genome-wide DNA binding of GBF1 is modulated by its heterodimerizing protein partners, HY5 and HYH. Mol Plant, 2014. 7(2): p. 448-51 [PMID:24157608] Tossi V,Lamattina L,Jenkins GI,Cassia RO Ultraviolet-B-induced stomatal closure in Arabidopsis is regulated by the UV RESISTANCE LOCUS8 photoreceptor in a nitric oxide-dependent mechanism. Plant Physiol., 2014. 164(4): p. 2220-30 [PMID:24586043] Tsai HL, et al. HUA ENHANCER1 is involved in posttranscriptional regulation of positive and negative regulators in Arabidopsis photomorphogenesis. Plant Cell, 2014. 26(7): p. 2858-72 [PMID:25052717] Karumuri S,Bandopadhyay R In silico analysis of the structure and interaction of COP1 protein of Arabidopsis thaliana. Indian J. Biochem. Biophys., 2014. 51(5): p. 343-9 [PMID:25630103] Jin J, et al. An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors. Mol. Biol. Evol., 2015. 32(7): p. 1767-73 [PMID:25750178] Maurya JP,Sethi V,Gangappa SN,Gupta N,Chattopadhyay S Interaction of MYC2 and GBF1 results in functional antagonism in blue light-mediated Arabidopsis seedling development. Plant J., 2015. 83(3): p. 439-50 [PMID:26047210] Xie W, et al. Exploring potential new floral organ morphogenesis genes of Arabidopsis thaliana using systems biology approach. Front Plant Sci, 2015. 6: p. 829 [PMID:26528302] Velanis CN,Herzyk P,Jenkins GI Regulation of transcription by the Arabidopsis UVR8 photoreceptor involves a specific histone modification. Plant Mol. Biol., 2016. 92(4-5): p. 425-443 [PMID:27534420] Loyola R, et al. The photomorphogenic factors UV-B RECEPTOR 1, ELONGATED HYPOCOTYL 5, and HY5 HOMOLOGUE are part of the UV-B signalling pathway in grapevine and mediate flavonol accumulation in response to the environment. J. Exp. Bot., 2016. 67(18): p. 5429-5445 [PMID:27543604] Feng XJ, et al. Light affects salt stress-induced transcriptional memory of P5CS1 in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(51): p. E8335-E8343 [PMID:27930298] Li C, et al. Characterization and functional analysis of four HYH splicing variants in Arabidopsis hypocotyl elongation. Gene, 2017. 619: p. 44-49 [PMID:28389360] Zhang Y, et al. Dissection of HY5/HYH expression in Arabidopsis reveals a root-autonomous HY5-mediated photomorphogenic pathway. PLoS ONE, 2017. 12(7): p. e0180449 [PMID:28683099] Woloszynska M, et al. The Elongator complex regulates hypocotyl growth in darkness and during photomorphogenesis. J. Cell. Sci., 2019. [PMID:28720596] Serivichyaswat PT,Susila H,Ahn JH Elongated Hypocotyl 5-Homolog (HYH) Negatively Regulates Expression of the Ambient Temperature-Responsive MicroRNA Gene MIR169. Front Plant Sci, 2017. 8: p. 2087 [PMID:29270188] Yang B, et al. RSM1, an Arabidopsis MYB protein, interacts with HY5/HYH to modulate seed germination and seedling development in response to abscisic acid and salinity. PLoS Genet., 2018. 14(12): p. e1007839 [PMID:30566447]