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

Gh_Sca005214G03

Organism

Gossypium hirsutum

Taxonomic ID

3635

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

ARR-B

Protein Properties

Length: 676aa MW: 74329.5 Da PI: 6.018

Description

ARR-B family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_Sca005214G03	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	G2-like	91.3	8.2e-29	215	268	1	55
G2-like 1 kprlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 kpr++W+ eLH++Fv av+qL G++kA+Pk+ilelm+v+gLt+e+v+SHLQkYRl Gh_Sca005214G03 215 KPRVVWSVELHQQFVAAVNQL-GIDKAVPKKILELMNVPGLTRENVASHLQKYRL 268 79*****************.******************************8 PP
2	Response_reg	74.4	4.3e-25	37	145	1	109
EEEESSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHH..ESEEEEESSCTTSEHHHHHHHHHHHTTTSEEEEEESTTTHHHHHHHHHT CS Response_reg 1 vlivdDeplvrellrqalekegyeevaeaddgeealellkekd..pDlillDiempgmdGlellkeireeepklpiivvtahgeeedalealka 92 vl+vdD+p+ + +l+++l++ y +v+ + +e al +l+e++ +D+++ D+ mp+mdG++ll++i e +lp+i+++a + ++ + + + Gh_Sca005214G03 37 VLVVDDDPTCLIILEKMLRNCSY-DVTKCNRAETALLKLRENRngFDIVISDVHMPDMDGFKLLEHIGLEM-DLPVIMMSADDGKDVVMKGVTH 128 89*******************.***********99999*******************6654.8***************** PP TESEEEESS--HHHHHH CS Response_reg 93 GakdflsKpfdpeelvk 109 Ga d+l Kp+ +e+l + Gh_Sca005214G03 129 GACDYLIKPVRIEALKN 145 ***********9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PIRSF	PIRSF036392	4.5E-174	9	668	IPR017053	Response regulator B-type, plant
SuperFamily	SSF52172	1.57E-35	34	159	IPR011006	CheY-like superfamily
Gene3D	G3DSA:3.40.50.2300	1.3E-41	34	175	No hit	No description
SMART	SM00448	2.7E-29	35	147	IPR001789	Signal transduction response regulator, receiver domain
PROSITE profile	PS50110	42.097	36	151	IPR001789	Signal transduction response regulator, receiver domain
Pfam	PF00072	2.0E-22	37	145	IPR001789	Signal transduction response regulator, receiver domain
CDD	cd00156	4.83E-26	38	150	No hit	No description
SuperFamily	SSF46689	3.58E-20	212	272	IPR009057	Homeodomain-like
PROSITE profile	PS51294	11.048	212	271	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	2.4E-30	214	273	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	9.7E-25	215	268	IPR006447	Myb domain, plants
Pfam	PF00249	9.7E-8	217	267	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:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 676 aa Download sequence Send to blast
MKNSSGGKGS MSTASSITTW KADVVPVPDQ FPAGLRVLVV DDDPTCLIIL EKMLRNCSYD 60 VTKCNRAETA LLKLRENRNG FDIVISDVHM PDMDGFKLLE HIGLEMDLPV IMMSADDGKD 120 VVMKGVTHGA CDYLIKPVRI EALKNIWQHV VRKRKNEWKD LEQSGSVEEG DRQPKQSEDA 180 DYSSSVNEGN WKSSKKRKDD EDETEDRDDT STLKKPRVVW SVELHQQFVA AVNQLGIDKA 240 VPKKILELMN VPGLTRENVA SHLQKYRLYL RRLSGVSPHS CNPNNSFMNP QDETFGPLSS 300 VHGLDLQTLT ATGQLPAQCL ATLQAAVLGR STAKSSIPMP LVNQRNIFSF ENPKLRFGEG 360 QQHVNNNNKQ VNLLHGIPTT MESKQLTSLR HTSQSIGNVN MQVAPHGAQS SQNNSSLIEM 420 GQPLSRVQIL NDSTVPLSVG QPIVPNGIAA NVSTRNGIPE NIRAPGYNLV SQTSSILNFP 480 MNHASELPVD SFSLRSTPGM SDHTSKGAFH EDFNSEIKGS GGFLPTYDVF NDYQYKSQNW 540 ELQNAGMILE DSQHSNSLQG NLDLAQSVLV QQGFPSGQIN GQNRSVPIVS KAMFSAGDST 600 EPGNLLNVNH HLNTIRAENT VRVKSGSVAD GNPSNLFADH FGQEDLMIAL LKQQQGIAPA 660 ENEFDFDGYS LDNIPV

Sequence ? help Back to Top

Protein Sequence Length: 676 aa Download sequence Send to blast

MKNSSGGKGS MSTASSITTW KADVVPVPDQ FPAGLRVLVV DDDPTCLIIL EKMLRNCSYD  60
VTKCNRAETA LLKLRENRNG FDIVISDVHM PDMDGFKLLE HIGLEMDLPV IMMSADDGKD  120
VVMKGVTHGA CDYLIKPVRI EALKNIWQHV VRKRKNEWKD LEQSGSVEEG DRQPKQSEDA  180
DYSSSVNEGN WKSSKKRKDD EDETEDRDDT STLKKPRVVW SVELHQQFVA AVNQLGIDKA  240
VPKKILELMN VPGLTRENVA SHLQKYRLYL RRLSGVSPHS CNPNNSFMNP QDETFGPLSS  300
VHGLDLQTLT ATGQLPAQCL ATLQAAVLGR STAKSSIPMP LVNQRNIFSF ENPKLRFGEG  360
QQHVNNNNKQ VNLLHGIPTT MESKQLTSLR HTSQSIGNVN MQVAPHGAQS SQNNSSLIEM  420
GQPLSRVQIL NDSTVPLSVG QPIVPNGIAA NVSTRNGIPE NIRAPGYNLV SQTSSILNFP  480
MNHASELPVD SFSLRSTPGM SDHTSKGAFH EDFNSEIKGS GGFLPTYDVF NDYQYKSQNW  540
ELQNAGMILE DSQHSNSLQG NLDLAQSVLV QQGFPSGQIN GQNRSVPIVS KAMFSAGDST  600
EPGNLLNVNH HLNTIRAENT VRVKSGSVAD GNPSNLFADH FGQEDLMIAL LKQQQGIAPA  660
ENEFDFDGYS LDNIPV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1irz_A	5e-22	214	274	4	64	ARR10-B
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.22703	0.0	boll

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed only from 5 days post germination onward, when the fixed meristem cell number is established. {ECO:0000269\|PubMed:17363254}.
Uniprot	TISSUE SPECIFICITY: Detected in the whole plant. Expressed at the root transition zone (PubMed:17363254). {ECO:0000269\|PubMed:15173562, ECO:0000269\|PubMed:17363254, ECO:0000269\|PubMed:9891419}.

Functional Description ? help Back to Top
Source	Description
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. Regulates SHY2 by binding to its promoter (PubMed:19039136). Involved in the root-meristem size determination through the regulation of cell differentiation (PubMed:17363254). {ECO:0000269\|PubMed:11574878, ECO:0000269\|PubMed:11691951, ECO:0000269\|PubMed:17363254, ECO:0000269\|PubMed:19039136}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000269\|PubMed:20605455}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016724281.1	0.0	PREDICTED: two-component response regulator ARR2
Swissprot	Q940D0	0.0	ARR1_ARATH; Two-component response regulator ARR1
TrEMBL	A0A2P5STE6	0.0	A0A2P5STE6_GOSBA; Two-component response regulator
STRING	Gorai.002G029200.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2403	27	73

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G16857.2	0.0	response regulator 1

Publications ? help Back to Top
Bürkle L,Meyer S,Dortay H,Lehrach H,Heyl A In vitro recombination cloning of entire cDNA libraries in Arabidopsis thaliana and its application to the yeast two-hybrid system. Funct. Integr. Genomics, 2005. 5(3): p. 175-83 [PMID:15714319] Moubayidin L, et al. Spatial coordination between stem cell activity and cell differentiation in the root meristem. Dev. Cell, 2013. 26(4): p. 405-15 [PMID:23987513] 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] Kurepa J,Li Y,Perry SE,Smalle JA Ectopic expression of the phosphomimic mutant version of Arabidopsis response regulator 1 promotes a constitutive cytokinin response phenotype. BMC Plant Biol., 2014. 14: p. 28 [PMID:24423196] 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] Marín-de la Rosa N, et al. Genome Wide Binding Site Analysis Reveals Transcriptional Coactivation of Cytokinin-Responsive Genes by DELLA Proteins. PLoS Genet., 2015. 11(7): p. e1005337 [PMID:26134422] D'Alessandro S,Golin S,Hardtke CS,Lo Schiavo F,Zottini M The co-chaperone p23 controls root development through the modulation of auxin distribution in the Arabidopsis root meristem. J. Exp. Bot., 2015. 66(16): p. 5113-22 [PMID:26163704] 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] Moubayidin L, et al. A SCARECROW-based regulatory circuit controls Arabidopsis thaliana meristem size from the root endodermis. Planta, 2016. 243(5): p. 1159-68 [PMID:26848984] Muraro D, et al. A multi-scale model of the interplay between cell signalling and hormone transport in specifying the root meristem of Arabidopsis thaliana. J. Theor. Biol., 2016. 404: p. 182-205 [PMID:27157127] 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] Kushwah S,Laxmi A The interaction between glucose and cytokinin signaling in controlling Arabidopsis thaliana seedling root growth and development. Plant Signal Behav, 2017. 12(5): p. e1312241 [PMID:28467152] 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] Liu B,De Storme N,Geelen D Cold interferes with male meiotic cytokinesis in Arabidopsis thaliana independently of the AHK2/3-AHP2/3/5 cytokinin signaling module. Cell Biol. Int., 2017. 41(8): p. 879-889 [PMID:28618065] 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] Rong XF, et al. Type-B ARRs Control Carpel Regeneration Through Mediating AGAMOUS Expression in Arabidopsis. Plant Cell Physiol., 2018. 59(4): p. 756-764 [PMID:29186581] 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] Waldie T,Leyser O Cytokinin Targets Auxin Transport to Promote Shoot Branching. Plant Physiol., 2018. 177(2): p. 803-818 [PMID:29717021]