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

676744902

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

SRS

Protein Properties

Length: 407aa MW: 42344.2 Da PI: 8.8985

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676744902	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	138.1	8.2e-43	222	361	3	154
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssaeskkelet 102 sgta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + ++ + ++ ++++ +k++r ++q+a+s+t++s++ ++++++t 676744902 222 SGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTTNPTAGSSLSTSSGTKKPRIV-GSQQQATSHTSTSNT-PPQSFDT 319 7899********************************************99999988888888899999999986.667777778877766.5666666 PP DUF702 103 sslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 ss r +s + ++aYq++v+igGhvfkG+LydqGle 676744902 320 SSS----------RQDGGGSREAWPGQYAYQAVVKIGGHVFKGFLYDQGLEP 361 632..........3344567788899*********************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	1.4E-40	224	360	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	2.5E-26	226	268	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	7.8E-14	336	359	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: 407 aa Download sequence Send to blast
MCLQELTGAA GSLGNRSREW LQASGATRTS AGAVATTRRH NLPTSDSGAF TDWAATTTTS 60 SRATEDLSLG FNAGPAVVHG GLGSASAAAG VPSWHPGSSV RYGLPSSAAA TEMGMVGLRD 120 VYLVAPAYHQ HHHHQNAGVV SGSDQINSNA ALGVGVIPLL TAAPPQQQQN VEDTDINFLG 180 DSRRWQNNNS NNSQTQYLHF KSTQQTAVAS SSNNSGSGSA ASGTATCQDC GNQAKKECKQ 240 RRCRTCCKSR GFDCSTHVKS TWVSAARRRE RQVMPTTNPT AGSSLSTSSG TKKPRIVGSQ 300 QQATSHTSTS NTPPQSFDTS SSRQDGGGSR EAWPGQYAYQ AVVKIGGHVF KGFLYDQGLE 360 PKEGFPNMSD LHLGGGANNH NGVSASPPIL DPPNLYGGGG SGGGFYG

Sequence ? help Back to Top

Protein Sequence Length: 407 aa Download sequence Send to blast

MCLQELTGAA GSLGNRSREW LQASGATRTS AGAVATTRRH NLPTSDSGAF TDWAATTTTS  60
SRATEDLSLG FNAGPAVVHG GLGSASAAAG VPSWHPGSSV RYGLPSSAAA TEMGMVGLRD  120
VYLVAPAYHQ HHHHQNAGVV SGSDQINSNA ALGVGVIPLL TAAPPQQQQN VEDTDINFLG  180
DSRRWQNNNS NNSQTQYLHF KSTQQTAVAS SSNNSGSGSA ASGTATCQDC GNQAKKECKQ  240
RRCRTCCKSR GFDCSTHVKS TWVSAARRRE RQVMPTTNPT AGSSLSTSSG TKKPRIVGSQ  300
QQATSHTSTS NTPPQSFDTS SSRQDGGGSR EAWPGQYAYQ AVVKIGGHVF KGFLYDQGLE  360
PKEGFPNMSD LHLGGGANNH NGVSASPPIL DPPNLYGGGG SGGGFYG

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676744902

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_013727118.1	0.0	protein LATERAL ROOT PRIMORDIUM 1-like
Swissprot	Q94CK9	1e-142	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A397XVM5	0.0	A0A397XVM5_BRACM; Uncharacterized protein
STRING	Bo2g010890.1	0.0	(Brassica oleracea)

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
AT5G12330.4	1e-142	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]