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

AT2G25180.1

Common Name

ARR12, F13D4.140, RR12

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

ARR-B

Protein Properties

Length: 596aa MW: 65626.5 Da PI: 6.6282

Description

response regulator 12

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT2G25180.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	G2-like	86.4	2.9e-27	195	248	1	55
G2-like 1 kprlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 k+r++Wt eLH++Fv av+qL G ekA Pk+il+lm+v+ Lt+e+v+SHLQk+Rl AT2G25180.1 195 KQRVVWTVELHKKFVAAVNQL-GYEKAMPKKILDLMNVEKLTRENVASHLQKFRL 248 79*****************.9*****************************8 PP
2	Response_reg	84.6	2.9e-28	19	127	1	109
EEEESSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHH..ESEEEEESSCTTSEHHHHHHHHHHHTTTSEEEEEESTTTHHHHHHHHHTTES CS Response_reg 1 vlivdDeplvrellrqalekegyeevaeaddgeealellkekd..pDlillDiempgmdGlellkeireeepklpiivvtahgeeedalealkaGak 95 vl vdD+++ +++l+++l++ +y +v+++ ++++alell+e++ +Dl++ D++mp+mdG++ll+ e++lp+i+++ah++++++ + + Ga AT2G25180.1 19 VLAVDDDQTCLKILESLLRHCQY-HVTTTNQAQKALELLRENKnkFDLVISDVDMPDMDGFKLLELVGL-EMDLPVIMLSAHSDPKYVMKGVTHGAC 113 799******************.***********888888***************87754.558******************** PP EEEESS--HHHHHH CS Response_reg 96 dflsKpfdpeelvk 109 d+l Kp+ +eel + AT2G25180.1 114 DYLLKPVRIEELKN 127 *********987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PIRSF	PIRSF036392	6.6E-193	1	596	IPR017053	Response regulator B-type, plant
Gene3D	G3DSA:3.40.50.2300	6.8E-43	16	169	No hit	No description
SuperFamily	SSF52172	1.99E-35	16	136	IPR011006	CheY-like superfamily
SMART	SM00448	2.0E-33	17	129	IPR001789	Signal transduction response regulator, receiver domain
PROSITE profile	PS50110	43.835	18	133	IPR001789	Signal transduction response regulator, receiver domain
Pfam	PF00072	1.3E-25	19	127	IPR001789	Signal transduction response regulator, receiver domain
CDD	cd00156	3.20E-28	20	132	No hit	No description
Gene3D	G3DSA:1.10.10.60	5.9E-29	192	253	IPR009057	Homeodomain-like
PROSITE profile	PS51294	11.449	192	251	IPR017930	Myb domain
SuperFamily	SSF46689	1.97E-19	193	252	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	2.0E-24	195	248	IPR006447	Myb domain, plants
Pfam	PF00249	1.6E-6	197	246	IPR001005	SANT/Myb domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000160	Biological Process	phosphorelay signal transduction system
GO:0009414	Biological Process	response to water deprivation
GO:0010082	Biological Process	regulation of root meristem growth
GO:0010380	Biological Process	regulation of chlorophyll biosynthetic process
GO:0031537	Biological Process	regulation of anthocyanin metabolic process
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0048367	Biological Process	shoot system development
GO:0080022	Biological Process	primary root development
GO:0080036	Biological Process	regulation of cytokinin-activated signaling pathway
GO:0080113	Biological Process	regulation of seed growth
GO:0005634	Cellular Component	nucleus
GO:0000156	Molecular Function	phosphorelay response regulator activity
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA 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:0000025	anatomy	root tip
PO:0000036	anatomy	leaf vascular system
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000282	anatomy	trichome
PO:0000293	anatomy	guard cell
PO:0003000	anatomy	transition zone
PO:0005660	anatomy	hydathode
PO:0006079	anatomy	shoot system meristem
PO:0006339	anatomy	juvenile vascular leaf
PO:0008019	anatomy	leaf lamina base
PO:0009005	anatomy	root
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: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: 596 aa Download sequence Send to blast
MTVEQNLEAL DQFPVGMRVL AVDDDQTCLK ILESLLRHCQ YHVTTTNQAQ KALELLRENK 60 NKFDLVISDV DMPDMDGFKL LELVGLEMDL PVIMLSAHSD PKYVMKGVTH GACDYLLKPV 120 RIEELKNIWQ HVVRSRFDKN RGSNNNGDKR DGSGNEGVGN SDQNNGKGNR KRKDQYNEDE 180 DEDRDDNDDS CAQKKQRVVW TVELHKKFVA AVNQLGYEKA MPKKILDLMN VEKLTRENVA 240 SHLQKFRLYL KRISGVANQQ AIMANSELHF MQMNGLDGFH HRPIPVGSGQ YHGGAPAMRS 300 FPPNGILGRL NTPSGIGVRS LSSPPAGMFL QNQTDIGKFH HVSSLPLNHS DGGNILQGLP 360 MPLEFDQLQT NNNKSRNMNS NKSIAGTSMA FPSFSTQQNS LISAPNNNVV VLEGHPQATP 420 PGFPGHQINK RLEHWSNAVS SSTHPPPPAH NSNSINHQFD VSPLPHSRPD PLEWNNVSSS 480 YSIPFCDSAN TLSSPALDTT NPRAFCRNTD FDSNTNVQPG VFYGPSTDAM ALLSSSNPKE 540 GFVVGQQKLQ SGGFMVADAG SLDDIVNSTM KQEQSQGDLS GGDLGYGGFS SLRTCI

Sequence ? help Back to Top

Protein Sequence Length: 596 aa Download sequence Send to blast

MTVEQNLEAL DQFPVGMRVL AVDDDQTCLK ILESLLRHCQ YHVTTTNQAQ KALELLRENK  60
NKFDLVISDV DMPDMDGFKL LELVGLEMDL PVIMLSAHSD PKYVMKGVTH GACDYLLKPV  120
RIEELKNIWQ HVVRSRFDKN RGSNNNGDKR DGSGNEGVGN SDQNNGKGNR KRKDQYNEDE  180
DEDRDDNDDS CAQKKQRVVW TVELHKKFVA AVNQLGYEKA MPKKILDLMN VEKLTRENVA  240
SHLQKFRLYL KRISGVANQQ AIMANSELHF MQMNGLDGFH HRPIPVGSGQ YHGGAPAMRS  300
FPPNGILGRL NTPSGIGVRS LSSPPAGMFL QNQTDIGKFH HVSSLPLNHS DGGNILQGLP  360
MPLEFDQLQT NNNKSRNMNS NKSIAGTSMA FPSFSTQQNS LISAPNNNVV VLEGHPQATP  420
PGFPGHQINK RLEHWSNAVS SSTHPPPPAH NSNSINHQFD VSPLPHSRPD PLEWNNVSSS  480
YSIPFCDSAN TLSSPALDTT NPRAFCRNTD FDSNTNVQPG VFYGPSTDAM ALLSSSNPKE  540
GFVVGQQKLQ SGGFMVADAG SLDDIVNSTM KQEQSQGDLS GGDLGYGGFS SLRTCI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1irz_A	7e-26	192	254	2	64	ARR10-B
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.19775	0.0	flower\| root\| seed

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	240254527	0.0
Genevisible	264374_at	0.0
Expression Atlas	AT2G25180	-
AtGenExpress	AT2G25180	-
ATTED-II	AT2G25180	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Detected immediately after seed germination. {ECO:0000269\|PubMed:17363254}.
Uniprot	TISSUE SPECIFICITY: Detected in the whole plant. Predominantly expressed in leaves. Expressed at the root transition zone (PubMed:17363254). {ECO:0000269\|PubMed:15173562, ECO:0000269\|PubMed:17363254}.

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes an Arabidopsis response regulator (ARR) protein that acts in concert with other type-B ARRs in the cytokinin signaling pathway.
UniProt	Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'. Functions as a response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Could directly activate some type-A response regulators in response to cytokinins. Involved in the root-meristem size determination through the regulation of cell differentiation (PubMed:17363254). Involved in activating SHY2 during meristem growth and controls PIN expression via activation of SHY2 (PubMed:20605455). {ECO:0000250\|UniProtKB:Q940D0, ECO:0000269\|PubMed:17363254, ECO:0000269\|PubMed:20605455}.

Function -- GeneRIF ? help Back to Top
ARR10 and ARR12play pivotal roles in the histidine kinase-dependent phosphorelay signaling in response to cytokinin in roots. [PMID: 17132632] The results of this study suggested that ARR1, ARR10 and ARR12 together play essential (or general) roles in cytokinin signal transduction. [PMID: 18037673] Results support a model in which cytokinin regulates a wide array of downstream responses through the action of a multistep phosphorelay that culminates in transcriptional regulation by ARR1, ARR10, and ARR12. [PMID: 18723577] Cytokinin regulates sodium homeostasis via ARR1 and ARR12, and acts through ARR1 and ARR12 to regulate AtHKT1;1 expression. [PMID: 21105923] low temperature inhibits root growth by reducing auxin accumulation via ARR1/12. [PMID: 25552473] The cytokinin module ARABIDOPSIS HISTIDINE KINASE3 (AHK3)/ARABIDOPSIS RESPONSE REGULATOR1 (ARR1)/ARR12 was found to interact with the GR24-dependent reduction in LR development, because mutants in this pathway rendered LR development insensitive to GR24. [PMID: 26519957] An arr1,10,12 triple mutant had more drought tolerance due to enhanced cell membrane integrity, anthocyanin synthesis, and abscissic acid hypersensitivity, and reduced stomatal aperture. Dehydration and ABA repressed all 3 genes. [PMID: 26884175] ARR12 binds to the promoter of WUS. [PMID: 28681564]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT2G25180.1

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

Regulation -- Hormone ? help Back to Top
Source	Hormone
AHD	cytokinin

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT4G11140, AT4G23750
IntAct	Search P62598

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT2G25180

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	CP002685	0.0	CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_180090.6	0.0	response regulator 12
Swissprot	P62598	0.0	ARR12_ARATH; Two-component response regulator ARR12
TrEMBL	A0A178VV07	0.0	A0A178VV07_ARATH; Two-component response regulator
STRING	AT2G25180.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1981	28	79
Representative plant	OGRP292	17	120

Link Out ? help Back to Top
Phytozome	AT2G25180.1
Entrez Gene	817056
iHOP	AT2G25180
wikigenes	AT2G25180

Publications ? help Back to Top
White JA, et al. A new set of Arabidopsis expressed sequence tags from developing seeds. The metabolic pathway from carbohydrates to seed oil. Plant Physiol., 2000. 124(4): p. 1582-94 [PMID:11115876] Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Hwang I,Sheen J Two-component circuitry in Arabidopsis cytokinin signal transduction. Nature, 2001. 413(6854): p. 383-9 [PMID:11574878] Hwang I,Chen HC,Sheen J Two-component signal transduction pathways in Arabidopsis. Plant Physiol., 2002. 129(2): p. 500-15 [PMID:12068096] Mason MG,Li J,Mathews DE,Kieber JJ,Schaller GE Type-B response regulators display overlapping expression patterns in Arabidopsis. Plant Physiol., 2004. 135(2): p. 927-37 [PMID:15173562] Mason MG, et al. Multiple type-B response regulators mediate cytokinin signal transduction in Arabidopsis. Plant Cell, 2005. 17(11): p. 3007-18 [PMID:16227453] Yokoyama A, et al. Type-B ARR transcription factors, ARR10 and ARR12, are implicated in cytokinin-mediated regulation of protoxylem differentiation in roots of Arabidopsis thaliana. Plant Cell Physiol., 2007. 48(1): p. 84-96 [PMID:17132632] Dello Ioio R, et al. Cytokinins determine Arabidopsis root-meristem size by controlling cell differentiation. Curr. Biol., 2007. 17(8): p. 678-82 [PMID:17363254] Ishida K,Yamashino T,Yokoyama A,Mizuno T Three type-B response regulators, ARR1, ARR10 and ARR12, play essential but redundant roles in cytokinin signal transduction throughout the life cycle of Arabidopsis thaliana. Plant Cell Physiol., 2008. 49(1): p. 47-57 [PMID:18037673] Argyros RD, et al. Type B response regulators of Arabidopsis play key roles in cytokinin signaling and plant development. Plant Cell, 2008. 20(8): p. 2102-16 [PMID:18723577] Moubayidin L, et al. The rate of cell differentiation controls the Arabidopsis root meristem growth phase. Curr. Biol., 2010. 20(12): p. 1138-43 [PMID:20605455] Kondo Y,Hirakawa Y,Kieber JJ,Fukuda H CLE peptides can negatively regulate protoxylem vessel formation via cytokinin signaling. Plant Cell Physiol., 2011. 52(1): p. 37-48 [PMID:20802224] Shin R,Jez JM,Basra A,Zhang B,Schachtman DP 14-3-3 proteins fine-tune plant nutrient metabolism. FEBS Lett., 2011. 585(1): p. 143-7 [PMID:21094157] Mason MG, et al. Type-B response regulators ARR1 and ARR12 regulate expression of AtHKT1;1 and accumulation of sodium in Arabidopsis shoots. Plant J., 2010. 64(5): p. 753-63 [PMID:21105923] Cutcliffe JW,Hellmann E,Heyl A,Rashotte AM CRFs form protein-protein interactions with each other and with members of the cytokinin signalling pathway in Arabidopsis via the CRF domain. J. Exp. Bot., 2011. 62(14): p. 4995-5002 [PMID:21705390] Elhiti M,Stasolla C In vitro shoot organogenesis and hormone response are affected by the altered levels of Brassica napus meristem genes. Plant Sci., 2012. 190: p. 40-51 [PMID:22608518] Das PK, et al. Cytokinins enhance sugar-induced anthocyanin biosynthesis in Arabidopsis. Mol. Cells, 2012. 34(1): p. 93-101 [PMID:22699753] Hill K, et al. Functional characterization of type-B response regulators in the Arabidopsis cytokinin response. Plant Physiol., 2013. 162(1): p. 212-24 [PMID:23482873] Kim HJ,Chiang YH,Kieber JJ,Schaller GE SCF(KMD) controls cytokinin signaling by regulating the degradation of type-B response regulators. Proc. Natl. Acad. Sci. U.S.A., 2013. 110(24): p. 10028-33 [PMID:23720308] Takahashi N, et al. Cytokinins control endocycle onset by promoting the expression of an APC/C activator in Arabidopsis roots. Curr. Biol., 2013. 23(18): p. 1812-7 [PMID:24035544] Cortleven A, et al. A novel protective function for cytokinin in the light stress response is mediated by the Arabidopsis histidine kinase2 and Arabidopsis histidine kinase3 receptors. Plant Physiol., 2014. 164(3): p. 1470-83 [PMID:24424319] Kim HJ,Kieber JJ,Schaller GE The rice F-box protein KISS ME DEADLY2 functions as a negative regulator of cytokinin signalling. Plant Signal Behav, 2013. 8(12): p. e26434 [PMID:24675172] Choi SH, et al. Gene duplication of type-B ARR transcription factors systematically extends transcriptional regulatory structures in Arabidopsis. Sci Rep, 2014. 4: p. 7197 [PMID:25425016] Zhu J, et al. Low temperature inhibits root growth by reducing auxin accumulation via ARR1/12. Plant Cell Physiol., 2015. 56(4): p. 727-36 [PMID:25552473] Jiang L, et al. Strigolactones spatially influence lateral root development through the cytokinin signaling network. J. Exp. Bot., 2016. 67(1): p. 379-89 [PMID:26519957] Nguyen KH, et al. Arabidopsis type B cytokinin response regulators ARR1, ARR10, and ARR12 negatively regulate plant responses to drought. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(11): p. 3090-5 [PMID:26884175] Cortleven A, et al. Cytokinin Regulates the Etioplast-Chloroplast Transition through the Two-Component Signaling System and Activation of Chloroplast-Related Genes. Plant Physiol., 2016. 172(1): p. 464-78 [PMID:27388681] Kobayashi K, et al. Shoot Removal Induces Chloroplast Development in Roots via Cytokinin Signaling. Plant Physiol., 2017. 173(4): p. 2340-2355 [PMID:28193764] Zhang TQ, et al. A Two-Step Model for de Novo Activation of WUSCHEL during Plant Shoot Regeneration. Plant Cell, 2017. 29(5): p. 1073-1087 [PMID:28389585] Meng WJ, et al. Type-B ARABIDOPSIS RESPONSE REGULATORs Specify the Shoot Stem Cell Niche by Dual Regulation of WUSCHEL. Plant Cell, 2017. 29(6): p. 1357-1372 [PMID:28576846] Kobayashi K,Iwase A Simultaneous but spatially different regulation of non-photosynthetic callus formation and photosynthetic root development after shoot removal. Plant Signal Behav, 2017. 12(6): p. e1338999 [PMID:28594268] Dai X, et al. ARR12 promotes de novo shoot regeneration in Arabidopsis thaliana via activation of WUSCHEL expression. J Integr Plant Biol, 2017. 59(10): p. 747-758 [PMID:28681564] Zhang F,May A,Irish VF Type-B ARABIDOPSIS RESPONSE REGULATORs Directly Activate WUSCHEL. Trends Plant Sci., 2017. 22(10): p. 815-817 [PMID:28886911] Yan Z, et al. Type B Response Regulators Act As Central Integrators in Transcriptional Control of the Auxin Biosynthesis Enzyme TAA1. Plant Physiol., 2017. 175(3): p. 1438-1454 [PMID:28931628] Bustillo-Avendaño E, et al. Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis. Plant Physiol., 2018. 176(2): p. 1709-1727 [PMID:29233938]