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

evm_27.model.AmTr_v1.0_scaffold00063.48

Common Name

AMTR_s00063p00161200, LOC18444571

Organism

Amborella trichopoda

Taxonomic ID

13333

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella

Family

SRS

Protein Properties

Length: 275aa MW: 28430.4 Da PI: 8.4144

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00063.48	genome	TAGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	197.3	4.9e-61	72	230	4	153
DUF702 4 gtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaask 73 gt++CqdCGnqakkdC h+RCRtCCksrg+dCathvkstWvpaa+rrer+ ++a + + a a k evm_27.model.AmTr_v1.0_scaffold00063.48 72 GTTTCQDCGNQAKKDCLHRRCRTCCKSRGYDCATHVKSTWVPAARRRERHMAAAVTGEGA---AGVGGGK 138 789*******************************************966555544433...3455566 PP DUF702 74 rkrelkskkqsalsstklssaeskkeletss.............lPeevsseavfrcvrvssvdd.geee 129 ++r ++++ +s+t++s ++++++++t s lP++v+++avf+cvrvss++d ge+e evm_27.model.AmTr_v1.0_scaffold00063.48 139 KPRLA--ASSQGTSHTSTSANTPPRSFDTGSshqdvnystgsgsLPSRVRAPAVFKCVRVSSIEDdGEDE 206 66654..4444455556666666777766666677778888888***************9879* PP DUF702 130 laYqtavsigGhvfkGiLydqGle 153 +aYq++v+igG +fkG+Lyd+G++ evm_27.model.AmTr_v1.0_scaffold00063.48 207 YAYQAVVKIGGRIFKGVLYDHGAA 230 **********************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	2.6E-58	73	230	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	1.6E-27	75	117	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	1.1E-24	181	228	IPR006511	Lateral Root Primordium type 1, C-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009733	Biological Process	response to auxin
GO:0048364	Biological Process	root development
GO:0042803	Molecular Function	protein homodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 275 aa Download sequence Send to blast
MVLLNSPFHD PTSAPSGPAG GPPYSHHHQP GAALGMIPLL TAGPHHQLVP EHSHSQGPER 60 RGGESSGSTV GGTTTCQDCG NQAKKDCLHR RCRTCCKSRG YDCATHVKST WVPAARRRER 120 HMAAAVTGEG AAGVGGGKKP RLAASSQGTS HTSTSANTPP RSFDTGSSHQ DVNYSTGSGS 180 LPSRVRAPAV FKCVRVSSIE DDGEDEYAYQ AVVKIGGRIF KGVLYDHGAA TAASSSSREN 240 LPNLSDLHLG GSSTPVMDAA ALLEGTSYGN PPIN*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that binds DNA on 5'-ACTCTAC-3' and promotes auxin homeostasis-regulating gene expression (e.g. YUC genes), as well as genes affecting stamen development, cell expansion and timing of flowering. Synergistically with other SHI-related proteins, regulates gynoecium, stamen and leaf development in a dose-dependent manner, controlling apical-basal patterning. Promotes style and stigma formation, and influence vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Modulates root growth. {ECO:0000269\|PubMed:16740146, ECO:0000269\|PubMed:18835563}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Expression repressed by LDL1 via histone H3 and H4 deacetylation. {ECO:0000269\|PubMed:18835563}.

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_006854799.2	0.0	protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	1e-62	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	U5CSP2	0.0	U5CSP2_AMBTC; Uncharacterized protein
STRING	ERN16266	0.0	(Amborella trichopoda)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP1313	15	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.2	1e-57	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	evm_27.model.AmTr_v1.0_scaffold00063.48
Entrez Gene	18444571

Publications ? help Back to Top
Amborella Genome Project The Amborella genome and the evolution of flowering plants. Science, 2013. 342(6165): p. 1241089 [PMID:24357323] Estornell LH,Landberg K,Cierlik I,Sundberg E SHI/STY Genes Affect Pre- and Post-meiotic Anther Processes in Auxin Sensing Domains in Arabidopsis. Front Plant Sci, 2018. 9: p. 150 [PMID:29491878]