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_Achr10P16410_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: 402aa MW: 44902.6 Da PI: 5.1328

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSMUA_Achr10P16410_001	genome	CIRAD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	305.4	1.3e-93	31	398	3	374
GRAS 3 elLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsP 89 el+ ecA+a++++d +++++lL+ l+ela+p+gd q+la+yf++AL r ++ ++ +y +l + ++++++ +++ +++ f+evsP GSMUA_Achr10P16410_001 31 ELIQECAKAIAEKDSSKIHHLLWMLNELATPYGDCDQKLASYFLQALLCRATEAGELCYTTLISAAEKQQSFVTARKVMLKFQEVSP 117 67889*****************************************************998888887777777778778** PP GRAS 90 ilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpf 176 + +f+h++ N aI+ea+ege+++Hi+D++ ++++QWp+L++aLasR +++p+lR+T+v+ s + e+g+r+ kfA+ +gvpf GSMUA_Achr10P16410_001 118 WTTFGHVASNGAIMEAMEGESKLHIVDISNTYCTQWPTLMEALASRGSDTPHLRLTVVAM-VSMGGSVMDEIGRRMVKFARLMGVPF 203 *******************************************************9.667999**************** PP GRAS 177 efnvl.vakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh..nsesFlerflea 260 ef+v+ +a++l +l+ eeL ++++Ea++Vn+v +l r+ +e+ rd++++++ l+P+vv+vve+ead +++++++ f ++ GSMUA_Achr10P16410_001 204 EFRVVsIASTLGQLTEEELGLRKDEAVVVNCVGALRRVR-----VEE-RDAFVRMLCALRPRVVTVVEEEADFttSKGDLVACFEQC 284 *8888************************97.....454.99****************998546679**** PP GRAS 261 leyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksd 347 +++ys ++ +le++++++s+er +E+e +r+i v+ac+g er+e++++W erl+ea F p ++++++ + ++ll+++ + GSMUA_Achr10P16410_001 285 VKFYSIFLGMLEESFSPTSNERFLLEKE-CSRSILGVLACNGGGVSERREKASQWCERLTEA-FAPTAFNDDVIGDLEALLERYR-E 368 ************************.89*************************98.******************.8 PP GRAS 348 gyrve...eesgslvlgWkdrpLvsvSaWr 374 g+++ + + l+l+Wk +p+v++SaW+ GSMUA_Achr10P16410_001 369 GWSLVpakGNAAGLYLTWKAEPVVWASAWK 398 877774324466788************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	44.28	3	376	IPR005202	Transcription factor GRAS
Pfam	PF03514	4.6E-91	31	398	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 402 aa Download sequence Send to blast
MQNTDPCHHH PSISCLLEPK DPREEEKWAA ELIQECAKAI AEKDSSKIHH LLWMLNELAT 60 PYGDCDQKLA SYFLQALLCR ATEAGELCYT TLISAAEKQQ SFVTARKVML KFQEVSPWTT 120 FGHVASNGAI MEAMEGESKL HIVDISNTYC TQWPTLMEAL ASRGSDTPHL RLTVVAMVSM 180 GGSVMDEIGR RMVKFARLMG VPFEFRVVSI ASTLGQLTEE ELGLRKDEAV VVNCVGALRR 240 VRVEERDAFV RMLCALRPRV VTVVEEEADF TTSKGDLVAC FEQCVKFYSI FLGMLEESFS 300 PTSNERFLLE KECSRSILGV LACNGGGVSE RREKASQWCE RLTEAFAPTA FNDDVIGDLE 360 ALLERYREGW SLVPAKGNAA GLYLTWKAEP VVWASAWKPI KP

Sequence ? help Back to Top

Protein Sequence Length: 402 aa Download sequence Send to blast

MQNTDPCHHH PSISCLLEPK DPREEEKWAA ELIQECAKAI AEKDSSKIHH LLWMLNELAT  60
PYGDCDQKLA SYFLQALLCR ATEAGELCYT TLISAAEKQQ SFVTARKVML KFQEVSPWTT  120
FGHVASNGAI MEAMEGESKL HIVDISNTYC TQWPTLMEAL ASRGSDTPHL RLTVVAMVSM  180
GGSVMDEIGR RMVKFARLMG VPFEFRVVSI ASTLGQLTEE ELGLRKDEAV VVNCVGALRR  240
VRVEERDAFV RMLCALRPRV VTVVEEEADF TTSKGDLVAC FEQCVKFYSI FLGMLEESFS  300
PTSNERFLLE KECSRSILGV LACNGGGVSE RREKASQWCE RLTEAFAPTA FNDDVIGDLE  360
ALLERYREGW SLVPAKGNAA GLYLTWKAEP VVWASAWKPI KP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_B	1e-130	9	399	8	420	Protein SHORT-ROOT
5b3h_E	1e-130	9	399	8	420	Protein SHORT-ROOT
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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 both cell division and cell specification. Regulates the radial organization of the shoot axial organs and is required for normal shoot gravitropism. Directly controls the transcription of SCR, and when associated with SCR, of MGP, RLK, TRI, NUC and SCL3. {ECO:0000269\|PubMed:10850497, ECO:0000269\|PubMed:12569126, ECO:0000269\|PubMed:15314023, ECO:0000269\|PubMed:16640459, ECO:0000269\|PubMed:17446396, ECO:0000269\|PubMed:9670559}.

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_009381696.1	0.0	PREDICTED: protein SHORT-ROOT-like isoform X1
Swissprot	Q9SZF7	1e-130	SHR_ARATH; Protein SHORT-ROOT
TrEMBL	M0RIR6	0.0	M0RIR6_MUSAM; Uncharacterized protein
STRING	GSMUA_Achr10P16410_001	0.0	(Musa acuminata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3526	37	81

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G37650.1	1e-126	GRAS family protein

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Muraro D, et al. Integration of hormonal signaling networks and mobile microRNAs is required for vascular patterning in Arabidopsis roots. Proc. Natl. Acad. Sci. U.S.A., 2014. 111(2): p. 857-62 [PMID:24381155] 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] 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] Ahrazem O, et al. Ectopic expression of a stress-inducible glycosyltransferase from saffron enhances salt and oxidative stress tolerance in Arabidopsis while alters anchor root formation. Plant Sci., 2015. 234: p. 60-73 [PMID:25804810] 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] Miguel A,Milhinhos A,Novák O,Jones B,Miguel CM The SHORT-ROOT-like gene PtSHR2B is involved in Populus phellogen activity. J. Exp. Bot., 2016. 67(5): p. 1545-55 [PMID:26709311] 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] Kim ES, et al. HAWAIIAN SKIRT regulates the quiescent center-independent meristem activity in Arabidopsis roots. Physiol Plant, 2016. 157(2): p. 221-33 [PMID:26968317] 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] 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] 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] 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] Henry S, et al. SHR overexpression induces the formation of supernumerary cell layers with cortex cell identity in rice. Dev. Biol., 2017. 425(1): p. 1-7 [PMID:28263767] Möller BK, et al. Auxin response cell-autonomously controls ground tissue initiation in the early Arabidopsis embryo. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(12): p. E2533-E2539 [PMID:28265057] 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] Yu Q, et al. Cell-Fate Specification in Arabidopsis Roots Requires Coordinative Action of Lineage Instruction and Positional Reprogramming. Plant Physiol., 2017. 175(2): p. 816-827 [PMID:28821591] Spiegelman Z,Lee CM,Gallagher KL KinG Is a Plant-Specific Kinesin That Regulates Both Intra- and Intercellular Movement of SHORT-ROOT. Plant Physiol., 2018. 176(1): p. 392-405 [PMID:29122988] 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]