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

GSMUA_Achr11P20070_001

Organism

Musa acuminata

Taxonomic ID

4641

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Zingiberales; Musaceae; Musa

Family

GRAS

Protein Properties

Length: 574aa MW: 61516.8 Da PI: 6.0336

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSMUA_Achr11P20070_001	genome	CIRAD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	309.9	5.7e-95	231	498	2	285
GRAS 2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevs 88 +lLl+cAeav++++le+a++lL ++sel++p g++ qR+aayf eA++arl++s+ +ly+ lp+ + + + ++a+++f+ +s GSMUA_Achr11P20070_001 231 LTLLLHCAEAVAADNLEEANRLLLEISELSTPFGTSAQRVAAYFSEAMSARLVSSCLGLYAPLPTVPHR----HRLASAFQVFNGIS 313 579**********************************************************999997....788999**** PP GRAS 89 PilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvp 175 P++kfsh+taNqaI ea+e+e+rvHiiDfdi+qGlQWp L++ LasRp+gpp++R+Tg+g s e+le+tg+rL++fAe+lg+p GSMUA_Achr11P20070_001 314 PFVKFSHFTANQAIQEAFEREDRVHIIDFDIMQGLQWPGLFHILASRPGGPPRVRLTGLGY----SMEALEATGKRLSDFAETLGLP 396 *********************************************************....****************** PP GRAS 176 fefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerfleale 262 fef + +a+++ +l++e+L v+++EalaV++ h+l+d ++s ++ +L+l+++l Pkvv++veq+++ ++sFl+rf+ea++ GSMUA_Achr11P20070_001 397 FEFIP-IAEKVGNLDPERLGVSRREALAVHWLQ--HSLYDVTGSDTN----TLWLLQRLAPKVVTMVEQDLSQ-AGSFLARFVEAIH 475 *.7*********************9..999999999999....****************98.899****** PP GRAS 263 yysalfdsleaklpreseerikv 285 yysalfdsl a+++++s+er+ v GSMUA_Achr11P20070_001 476 YYSALFDSLGASYSEDSQERHIV 498 ******************986 PP
2	GRAS	59.9	5.4e-19	499	562	311	374
GRAS 311 tlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374 ++++Wre+l+++GF+ v+l +aa+qa lll +++sdgy++ ee+g+l lgWkd L+++SaWr GSMUA_Achr11P20070_001 499 KFSNWREKLGQSGFRGVSLAGNAAAQATLLLGMFPSDGYTLVEENGTLKLGWKDLCLLTASAWR 562 6899***********************************************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	48.963	204	574	IPR005202	Transcription factor GRAS
Pfam	PF03514	2.0E-92	231	498	IPR005202	Transcription factor GRAS
Pfam	PF03514	1.9E-16	499	562	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 574 aa Download sequence Send to blast
MVKKRLASEL DLQSGPSSYS AARLPRRGVS TGSSATPAST PPVPLPSLPA PPLPALPSPA 60 VCGFSGLPPF PPEFDRIVLP ASSAEGLQLV SSSAGGVGGG GSDDDGAGTA WVDGIIRDII 120 SSSAGGEVSI PQIVNSVREI VHPCNPGLAA LLELRLRSLI SDPMPPPLPE SAQQRPQPPL 180 QPQTHPQRSS NSVSSEEATA ATSAAAAAAA AKEKRDELQQ RKRDEEGLHL LTLLLHCAEA 240 VAADNLEEAN RLLLEISELS TPFGTSAQRV AAYFSEAMSA RLVSSCLGLY APLPTVPHRH 300 RLASAFQVFN GISPFVKFSH FTANQAIQEA FEREDRVHII DFDIMQGLQW PGLFHILASR 360 PGGPPRVRLT GLGYSMEALE ATGKRLSDFA ETLGLPFEFI PIAEKVGNLD PERLGVSRRE 420 ALAVHWLQHS LYDVTGSDTN TLWLLQRLAP KVVTMVEQDL SQAGSFLARF VEAIHYYSAL 480 FDSLGASYSE DSQERHIVKF SNWREKLGQS GFRGVSLAGN AAAQATLLLG MFPSDGYTLV 540 EENGTLKLGW KDLCLLTASA WRPISHSRPP PPPL

Sequence ? help Back to Top

Protein Sequence Length: 574 aa Download sequence Send to blast

MVKKRLASEL DLQSGPSSYS AARLPRRGVS TGSSATPAST PPVPLPSLPA PPLPALPSPA  60
VCGFSGLPPF PPEFDRIVLP ASSAEGLQLV SSSAGGVGGG GSDDDGAGTA WVDGIIRDII  120
SSSAGGEVSI PQIVNSVREI VHPCNPGLAA LLELRLRSLI SDPMPPPLPE SAQQRPQPPL  180
QPQTHPQRSS NSVSSEEATA ATSAAAAAAA AKEKRDELQQ RKRDEEGLHL LTLLLHCAEA  240
VAADNLEEAN RLLLEISELS TPFGTSAQRV AAYFSEAMSA RLVSSCLGLY APLPTVPHRH  300
RLASAFQVFN GISPFVKFSH FTANQAIQEA FEREDRVHII DFDIMQGLQW PGLFHILASR  360
PGGPPRVRLT GLGYSMEALE ATGKRLSDFA ETLGLPFEFI PIAEKVGNLD PERLGVSRRE  420
ALAVHWLQHS LYDVTGSDTN TLWLLQRLAP KVVTMVEQDL SQAGSFLARF VEAIHYYSAL  480
FDSLGASYSE DSQERHIVKF SNWREKLGQS GFRGVSLAGN AAAQATLLLG MFPSDGYTLV  540
EENGTLKLGW KDLCLLTASA WRPISHSRPP PPPL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	0.0	214	565	3	382	Protein SCARECROW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor required for quiescent center cells specification and maintenance of surrounding stem cells, and for the asymmetric cell division involved in radial pattern formation in roots. Essential for cell division but not differentiation of the ground tissue. Also required for normal shoot gravitropism. Regulates the radial organization of the shoot axial organs. Binds to the promoter of MGP, NUC, RLK and SCL3. Restricts SHR movment and sequesters it into the nucleus of the endodermis. {ECO:0000269\|PubMed:10631180, ECO:0000269\|PubMed:12569126, ECO:0000269\|PubMed:15142972, ECO:0000269\|PubMed:15314023, ECO:0000269\|PubMed:16640459, ECO:0000269\|PubMed:17446396, ECO:0000269\|PubMed:22921914, ECO:0000269\|PubMed:24302889, ECO:0000269\|PubMed:8819871, ECO:0000269\|PubMed:9375406, ECO:0000269\|PubMed:9670559}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by SHR and by itself. {ECO:0000269\|PubMed:10850497, ECO:0000269\|PubMed:11565032, ECO:0000269\|PubMed:15314023}.

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_009384356.1	0.0	PREDICTED: protein SCARECROW 2-like
Swissprot	Q9M384	0.0	SCR_ARATH; Protein SCARECROW
TrEMBL	M0RTT7	0.0	M0RTT7_MUSAM; Uncharacterized protein
STRING	GSMUA_Achr11P20070_001	0.0	(Musa acuminata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1371	38	122

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G54220.1	0.0	GRAS family protein

Publications ? help Back to Top
Liu YG, et al. Complementation of plant mutants with large genomic DNA fragments by a transformation-competent artificial chromosome vector accelerates positional cloning. Proc. Natl. Acad. Sci. U.S.A., 1999. 96(11): p. 6535-40 [PMID:10339623] Ticconi CA, et al. ER-resident proteins PDR2 and LPR1 mediate the developmental response of root meristems to phosphate availability. Proc. Natl. Acad. Sci. U.S.A., 2009. 106(33): p. 14174-9 [PMID:19666499] 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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Tian H,Jia Y,Niu T,Yu Q,Ding Z The key players of the primary root growth and development also function in lateral roots in Arabidopsis. Plant Cell Rep., 2014. 33(5): p. 745-53 [PMID:24504658] Reyes-Hernández BJ, et al. The root indeterminacy-to-determinacy developmental switch is operated through a folate-dependent pathway in Arabidopsis thaliana. New Phytol., 2014. 202(4): p. 1223-36 [PMID:24635769] Gao X,Wang C,Cui H Identification of bundle sheath cell fate factors provides new tools for C3-to-C4 engineering. Plant Signal Behav, 2018. [PMID:24819776] Ron M, et al. Hairy root transformation using Agrobacterium rhizogenes as a tool for exploring cell type-specific gene expression and function using tomato as a model. Plant Physiol., 2014. 166(2): p. 455-69 [PMID:24868032] Jia Y, et al. The Arabidopsis thaliana elongator complex subunit 2 epigenetically affects root development. J. Exp. Bot., 2015. 66(15): p. 4631-42 [PMID:25998905] Zhang M, et al. A tetratricopeptide repeat domain-containing protein SSR1 located in mitochondria is involved in root development and auxin polar transport in Arabidopsis. Plant J., 2015. 83(4): p. 582-99 [PMID:26072661] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Gong X, et al. SEUSS Integrates Gibberellin Signaling with Transcriptional Inputs from the SHR-SCR-SCL3 Module to Regulate Middle Cortex Formation in the Arabidopsis Root. Plant Physiol., 2016. 170(3): p. 1675-83 [PMID:26818732] 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] Madmon O, et al. Expression of MAX2 under SCARECROW promoter enhances the strigolactone/MAX2 dependent response of Arabidopsis roots to low-phosphate conditions. Planta, 2016. 243(6): p. 1419-27 [PMID:26919985] Lee SA, et al. Interplay between ABA and GA Modulates the Timing of Asymmetric Cell Divisions in the Arabidopsis Root Ground Tissue. Mol Plant, 2016. 9(6): p. 870-84 [PMID:26970019] Benfey PN Defining the Path from Stem Cells to Differentiated Tissue. Curr. Top. Dev. Biol., 2016. 116: p. 35-43 [PMID:26970612] Li Q,Zhao Y,Yue M,Xue Y,Bao S The Protein Arginine Methylase 5 (PRMT5/SKB1) Gene Is Required for the Maintenance of Root Stem Cells in Response to DNA Damage. J Genet Genomics, 2016. 43(4): p. 187-97 [PMID:27090604] Clark NM, et al. Tracking transcription factor mobility and interaction in Arabidopsis roots with fluorescence correlation spectroscopy. Elife, 2017. [PMID:27288545] Choi JW,Lim J Control of Asymmetric Cell Divisions during Root Ground Tissue Maturation. Mol. Cells, 2016. 39(7): p. 524-9 [PMID:27306644] Yoon EK, et al. Conservation and Diversification of the SHR-SCR-SCL23 Regulatory Network in the Development of the Functional Endodermis in Arabidopsis Shoots. Mol Plant, 2016. 9(8): p. 1197-1209 [PMID:27353361] Waszczak C, et al. SHORT-ROOT Deficiency Alleviates the Cell Death Phenotype of the Arabidopsis catalase2 Mutant under Photorespiration-Promoting Conditions. Plant Cell, 2016. 28(8): p. 1844-59 [PMID:27432873] Goh T, et al. Quiescent center initiation in the Arabidopsis lateral root primordia is dependent on the SCARECROW transcription factor. Development, 2016. 143(18): p. 3363-71 [PMID:27510971] Yu Q, et al. A P-Loop NTPase Regulates Quiescent Center Cell Division and Distal Stem Cell Identity through the Regulation of ROS Homeostasis in Arabidopsis Root. PLoS Genet., 2016. 12(9): p. e1006175 [PMID:27583367] Sparks EE, et al. Establishment of Expression in the SHORTROOT-SCARECROW Transcriptional Cascade through Opposing Activities of Both Activators and Repressors. Dev. Cell, 2016. 39(5): p. 585-596 [PMID:27923776] Hirano Y, et al. Structure of the SHR-SCR heterodimer bound to the BIRD/IDD transcriptional factor JKD. Nat Plants, 2017. 3: p. 17010 [PMID:28211915] Kobayashi A,Miura S,Kozaki A INDETERMINATE DOMAIN PROTEIN binding sequences in the 5'-untranslated region and promoter of the SCARECROW gene play crucial and distinct roles in regulating SCARECROW expression in roots and leaves. Plant Mol. Biol., 2017. 94(1-2): p. 1-13 [PMID:28324206] Díaz-Triviño S,Long Y,Scheres B,Blilou I Analysis of a Plant Transcriptional Regulatory Network Using Transient Expression Systems. Methods Mol. Biol., 2017. 1629: p. 83-103 [PMID:28623581] Long Y, et al. In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots. Nature, 2017. 548(7665): p. 97-102 [PMID:28746306] Bruno L, et al. In Arabidopsis thaliana Cadmium Impact on the Growth of Primary Root by Altering SCR Expression and Auxin-Cytokinin Cross-Talk. Front Plant Sci, 2017. 8: p. 1323 [PMID:28798767] Mira MM, et al. Expression of Arabidopsis class 1 phytoglobin (AtPgb1) delays death and degradation of the root apical meristem during severe PEG-induced water deficit. J. Exp. Bot., 2017. 68(20): p. 5653-5668 [PMID:29059380] 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] Ercoli MF, et al. GIF Transcriptional Coregulators Control Root Meristem Homeostasis. Plant Cell, 2018. 30(2): p. 347-359 [PMID:29352064] Shimotohno A,Heidstra R,Blilou I,Scheres B Root stem cell niche organizer specification by molecular convergence of PLETHORA and SCARECROW transcription factor modules. Genes Dev., 2018. 32(15-16): p. 1085-1100 [PMID:30018102]