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

XP_009121858.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

SRS

Protein Properties

Length: 361aa MW: 37864.6 Da PI: 8.2218

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009121858.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	206.8	5.8e-64	161	314	3	154
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssaesk 97 sgta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + +a++s+ +++ + s+++++ +s+t++s ++++ XP_009121858.1 161 SGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTASTSSGTKKPRIVGSQQQQQA-------TSHTSTS-NTPP 247 7899********************************************99998887666555433333333222.......2222222.2233 PP DUF702 98 keletss..........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 ++++tss +P +v+++avf+cvrv++v+dg++e+aYq++v+igGhvfkG+LydqGle XP_009121858.1 248 QSFDTSSsrqdggpreaWPGQVRAAAVFKCVRVTAVEDGDDEYAYQAVVKIGGHVFKGFLYDQGLEP 314 33333333334444445*********************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	2.1E-57	163	313	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	2.1E-26	165	207	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	1.9E-30	264	312	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: 361 aa Download sequence Send to blast
MTTSSRATED LSLGFNAGPS VVHGGLASTS AAAGVPSWPL GSSLRYGLPS SPAAAEMGMV 60 GLRDVYLVAP AYHHQNAGVV SGSDQINSNA ALGVGMIPLL TAAPPHQQNV EDTDINFLGD 120 SRRWQNNNNS HNQTQYLHFK SAHQTAVASS SNNSGSGSAA SGTATCQDCG NQAKKECKQR 180 RCRTCCKSRG FDCSTHVKST WVSAARRRER QVMPTASTSS GTKKPRIVGS QQQQQATSHT 240 STSNTPPQSF DTSSSRQDGG PREAWPGQVR AAAVFKCVRV TAVEDGDDEY AYQAVVKIGG 300 HVFKGFLYDQ GLEPKEGFPN MSDLHLGGGA DNNNGVSVAS QPNLDPPPNL YGGGGSGGFY 360 G

Sequence ? help Back to Top

Protein Sequence Length: 361 aa Download sequence Send to blast

MTTSSRATED LSLGFNAGPS VVHGGLASTS AAAGVPSWPL GSSLRYGLPS SPAAAEMGMV  60
GLRDVYLVAP AYHHQNAGVV SGSDQINSNA ALGVGMIPLL TAAPPHQQNV EDTDINFLGD  120
SRRWQNNNNS HNQTQYLHFK SAHQTAVASS SNNSGSGSAA SGTATCQDCG NQAKKECKQR  180
RCRTCCKSRG FDCSTHVKST WVSAARRRER QVMPTASTSS GTKKPRIVGS QQQQQATSHT  240
STSNTPPQSF DTSSSRQDGG PREAWPGQVR AAAVFKCVRV TAVEDGDDEY AYQAVVKIGG  300
HVFKGFLYDQ GLEPKEGFPN MSDLHLGGGA DNNNGVSVAS QPNLDPPPNL YGGGGSGGFY  360
G

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during the early stages of root primordium development and disappears prior to the emergence of lateral roots from the parent root. {ECO:0000269\|PubMed:7647564}.
Uniprot	TISSUE SPECIFICITY: Restricted to lateral root primordia. {ECO:0000269\|PubMed:7647564}.

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	XP_009121858.1

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_009121858.1	0.0	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	1e-153	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A397XVM5	0.0	A0A397XVM5_BRACM; Uncharacterized protein
STRING	Bra008898.1-P	0.0	(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
AT5G12330.4	1e-178	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]