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

AT2G31380.1

Common Name

BBX25, STH, STH1, T28P16.13

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

DBB

Protein Properties

Length: 238aa MW: 26656.9 Da PI: 4.6659

Description

salt tolerance homologue

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT2G31380.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-B_box	23.2	1.5e-07	4	43	5	38
zf-B_box 5 kCpeHeekelqlfCedCqqllCedClleeHkg......Ht 38 C+ +e+ +++l C ++ lC++C +e H H+ AT2G31380.1 4 QCDVCEKAPATLICCADEAALCAKCDVEVHAAnklaskHQ 43 7*****************************6556666665 PP
2	zf-B_box	27.2	8e-09	55	86	4	35
zf-B_box 4 rkCpeHeekelqlfCedCqqllCedClleeHk 35 + C+ + ek + +fC +++ llC+dC +++H AT2G31380.1 55 PPCDICLEKAAFIFCVEDRALLCRDCDEATHA 86 68*****************************4 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50119	9.371	1	47	IPR000315	B-box-type zinc finger
CDD	cd00021	9.71E-7	3	47	No hit	No description
Pfam	PF00643	8.6E-6	4	44	IPR000315	B-box-type zinc finger
SMART	SM00336	1.8E-9	4	47	IPR000315	B-box-type zinc finger
PROSITE profile	PS50119	9.343	52	99	IPR000315	B-box-type zinc finger
SMART	SM00336	5.9E-14	52	99	IPR000315	B-box-type zinc finger
CDD	cd00021	7.48E-7	55	98	No hit	No description
Pfam	PF00643	1.9E-6	55	95	IPR000315	B-box-type zinc finger

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010100	Biological Process	negative regulation of photomorphogenesis
GO:0005634	Cellular Component	nucleus
GO:0000989	Molecular Function	transcription factor activity, transcription factor binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding
GO:0019904	Molecular Function	protein domain specific 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:0009052	anatomy	flower pedicel
PO:0020030	anatomy	cotyledon
PO:0020038	anatomy	petiole
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0025281	anatomy	pollen
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:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral 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: 238 aa Download sequence Send to blast
MKIQCDVCEK APATLICCAD EAALCAKCDV EVHAANKLAS KHQRLFLDSL STKFPPCDIC 60 LEKAAFIFCV EDRALLCRDC DEATHAPNTR SANHQRFLAT GIRVALSSTS CNQEVEKNHF 120 DPSNQQSLSK PPTQQPAAPS PLWATDEFFS YSDLDCSNKE KEQLDLGELD WLAEMGLFGD 180 QPDQEALPVA EVPELSFSHL AHAHSYNRPM KSNVPNKKQR LEYRYDDEEE HFLVPDLG

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.69838	0.0	bud\| flower

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	145360511	0.0
Genevisible	263252_at	0.0
Expression Atlas	AT2G31380	-
AtGenExpress	AT2G31380	-
ATTED-II	AT2G31380	-

Functional Description ? help Back to Top
Source	Description
TAIR	a B-box zinc finger protein that interacts with COP1. contains a novel 11 amino acid motif at the C-terminus (also found at the N-terminus of HY5) that is involved in the COP1 interaction.
UniProt	Acts as negative regulator of seedling photomorphogenesis (PubMed:18540109). BBX25/STH and BBX24/STO function as transcriptional corepressors of HY5 activity, leading to the down-regulation of BBX22 expression. BBX25/STH acts additively with BBX24/STO during de-etiolation and the hypocotyl shade avoidance response (PubMed:23624715). {ECO:0000269\|PubMed:18540109, ECO:0000269\|PubMed:23624715}.

Function -- GeneRIF ? help Back to Top
Data suggest that BBX25 (At2g31380) and BBX24 (At1g06040) function as transcriptional corepressors, probably by forming inactive heterodimers with HY5 (At5g11260) downregulating BBX22 (AT1G78600) expression for the light-mediated seedling development. [PMID: 23624715] BX24 and BBX25 physically interact with HYH which leads to depletion of HYH molecules from the active pool and, thus indirectly, reduce the function of HY5 in promoting photomorphogenesis. [BBX25] [PMID: 23733077]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT2G31380.1

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

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT5G11260, AT1G14920
IntAct	Search Q9SID1

Phenotype -- Disruption Phenotype ? help Back to Top
Source	Description
UniProt	DISRUPTION PHENOTYPE: Reduced length of hypocotyls. {ECO:0000269\|PubMed:23624715}.

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT2G31380

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF323666	0.0	AF323666.1 Arabidopsis thaliana B-box zinc finger protein STH mRNA, complete cds.
GenBank	AF325077	0.0	AF325077.1 Arabidopsis thaliana putative CONSTANS-like B-box zinc finger protein (At2g31380) mRNA, complete cds.
GenBank	AF370311	0.0	AF370311.1 Arabidopsis thaliana putative CONSTANS B-box zinc finger protein (At2g31380) mRNA, complete cds.
GenBank	AY063097	0.0	AY063097.1 Arabidopsis thaliana putative CONSTANS B-box zinc finger protein (At2g31380) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_565722.1	1e-177	salt tolerance homologue
Swissprot	Q9SID1	1e-178	BBX25_ARATH; B-box zinc finger protein 25
TrEMBL	A0A178VP39	1e-175	A0A178VP39_ARATH; STH
STRING	AT2G31380.1	1e-176	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2711	27	67
Representative plant	OGRP5397	10	20

Link Out ? help Back to Top
Phytozome	AT2G31380.1
Entrez Gene	817696
iHOP	AT2G31380
wikigenes	AT2G31380

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Holm M,Hardtke CS,Gaudet R,Deng XW Identification of a structural motif that confers specific interaction with the WD40 repeat domain of Arabidopsis COP1. EMBO J., 2001. 20(1-2): p. 118-27 [PMID:11226162] Kreps JA, et al. Transcriptome changes for Arabidopsis in response to salt, osmotic, and cold stress. Plant Physiol., 2002. 130(4): p. 2129-41 [PMID:12481097] Hudson ME,Lisch DR,Quail PH The FHY3 and FAR1 genes encode transposase-related proteins involved in regulation of gene expression by the phytochrome A-signaling pathway. Plant J., 2003. 34(4): p. 453-71 [PMID:12753585] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Becher M,Talke IN,Krall L,Kr Cross-species microarray transcript profiling reveals high constitutive expression of metal homeostasis genes in shoots of the zinc hyperaccumulator Arabidopsis halleri. Plant J., 2004. 37(2): p. 251-68 [PMID:14690509] Tepperman JM, et al. Expression profiling of phyB mutant demonstrates substantial contribution of other phytochromes to red-light-regulated gene expression during seedling de-etiolation. Plant J., 2004. 38(5): p. 725-39 [PMID:15144375] Khanna R, et al. Functional profiling reveals that only a small number of phytochrome-regulated early-response genes in Arabidopsis are necessary for optimal deetiolation. Plant Cell, 2006. 18(9): p. 2157-71 [PMID:16891401] Cao D,Cheng H,Wu W,Soo HM,Peng J Gibberellin mobilizes distinct DELLA-dependent transcriptomes to regulate seed germination and floral development in Arabidopsis. Plant Physiol., 2006. 142(2): p. 509-25 [PMID:16920880] 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] Datta S,Hettiarachchi C,Johansson H,Holm M SALT TOLERANCE HOMOLOG2, a B-box protein in Arabidopsis that activates transcription and positively regulates light-mediated development. Plant Cell, 2007. 19(10): p. 3242-55 [PMID:17965270] 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] 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] Khanna R, et al. The Arabidopsis B-box zinc finger family. Plant Cell, 2009. 21(11): p. 3416-20 [PMID:19920209] Yamawaki S,Yamashino T,Nakamichi N,Nakanishi H,Mizuno T Light-responsive double B-box containing transcription factors are conserved in Physcomitrella patens. Biosci. Biotechnol. Biochem., 2011. 75(10): p. 2037-41 [PMID:21979077] Gangappa SN, et al. The Arabidopsis B-BOX protein BBX25 interacts with HY5, negatively regulating BBX22 expression to suppress seedling photomorphogenesis. Plant Cell, 2013. 25(4): p. 1243-57 [PMID:23624715] 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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Mar Large-scale identification of gibberellin-related transcription factors defines group VII ETHYLENE RESPONSE FACTORS as functional DELLA partners. Plant Physiol., 2014. 166(2): p. 1022-32 [PMID:25118255] Zhang X,Lin R Light signaling differentially regulates the expression of group IV of the B-box zinc finger family. Plant Signal Behav, 2017. 12(9): p. e1365213 [PMID:28922622]