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

RrC23589_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

SRS

Protein Properties

Length: 202aa MW: 21436.5 Da PI: 8.5735

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC23589_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	209.1	1.1e-64	2	155	3	154
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssaeskkel 100 sgta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + ++as++ + +k++r s++q+a+s+t++s++ +++++ RrC23589_p1 2 SGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTTASTS-------SGTKKPRIVGSQQQQATSHTSTSNT-PPQSF 91 6899********************************************9988877554.......4556666666666666666665554.34455 PP DUF702 101 etss..........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 etss +P +v+++avf+cvrv++v+dg++e+aYq++v+igGhvfkG+LydqGle RrC23589_p1 92 ETSSsrqddgsreaWPGQVRAAAVFKCVRVTAVEDGDDEYAYQAVVKIGGHVFKGFLYDQGLEP 155 55544666666677*********************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	4.4E-58	4	154	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	8.8E-27	6	48	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	7.7E-31	105	153	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: 202 aa Download sequence Send to blast
ASGTATCQDC GNQAKKECKQ RRCRTCCKSR GFDCSTHVKS TWVSAARRRE RQVMPTTAST 60 SSGTKKPRIV GSQQQQATSH TSTSNTPPQS FETSSSRQDD GSREAWPGQV RAAAVFKCVR 120 VTAVEDGDDE YAYQAVVKIG GHVFKGFLYD QGLEPKEGFP NMSDLHLGGG ANSNNGASAS 180 QPILDPPNVY GGGDGSGGGF YG

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	GU205266	0.0	GU205266.1 Brassica rapa subsp. pekinensis lateral root primordium 1 (LRP1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018442186.1	1e-129	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	1e-114	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A3P6DHC3	1e-121	A0A3P6DHC3_BRACM; Uncharacterized protein
STRING	Bra008898.1-P	1e-122	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5883	26	46

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.2	1e-98	Lateral root primordium (LRP) protein-related

Publications ? help Back to Top
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]