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

Rsa1.0_00224.1_g00028.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 548aa MW: 58728.5 Da PI: 7.5535

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00224.1_g00028.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	204.6	2.8e-63	347	502	3	154
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa....aeaaskrkrelkskkqs 84 sgta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + ++as+++ +++ ++++++ +++s++++ Rsa1.0_00224.1_g00028.1 347 SGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTTASTSSGTKKprivGSQQQQQATSHTSTSNT 432 7899********************************************999888876665555444333333333333444444 PP DUF702 85 alsstklssaeskkeletsslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 +s ++ss+ + e + +P +v+++avf+cvrv++v+dg++e+aYq++v+igGhvfkG+LydqGle Rsa1.0_00224.1_g00028.1 433 PPQSFETSSSRQDGEGCREAWPGQVRAAAVFKCVRVTAVEDGDDEYAYQAVVKIGGHVFKGFLYDQGLEP 502 44444444444444444455*********************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14009	1.3E-8	2	132	IPR025322	Protein of unknown function DUF4228, plant
Pfam	PF05142	1.3E-56	349	501	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	3.7E-26	351	393	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	3.5E-30	452	500	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: 548 aa Download sequence Send to blast
MDDCLIPGQT YFVLPIERFA YIVLTTSCLS IFNSNIQNGP STKPPPLSFT APSSPPPFEY 60 SKGPNGKILI KVSPHFIMSL ICKRRNIAED EVIIDCGESK DICNSPELKK HYDQLVGTRE 120 HLWSPKLQTI SEHETRVSPL RLVVVHEQVD NLHVYLVFQL AVATTRRHNL PTSDSGAFTD 180 WAATTTTSSR ATEDLSLGFN AGPAVVHGGL ASSPAAAGVP SWPLGSSVRY GLQSSAAAAA 240 EMGMVGLRDV YLVSPAYHHH HQNAGVVTGS DQINSNAALG VGMIPLLTAA PPHQQNVEDT 300 DINFLGDGRR WQNSNDNNQT QYLHFKSAHQ MAVASSSNNS GSGSAASGTA TCQDCGNQAK 360 KECKQRRCRT CCKSRGFDCS THVKSTWVSA ARRRERQVMP TTASTSSGTK KPRIVGSQQQ 420 QQATSHTSTS NTPPQSFETS SSRQDGEGCR EAWPGQVRAA AVFKCVRVTA VEDGDDEYAY 480 QAVVKIGGHV FKGFLYDQGL EPKEGFPNMS DLHLGGGANS TNGVSASQPI IDPPNVYGGG 540 GSGGGFYG

Sequence ? help Back to Top

Protein Sequence Length: 548 aa Download sequence Send to blast

MDDCLIPGQT YFVLPIERFA YIVLTTSCLS IFNSNIQNGP STKPPPLSFT APSSPPPFEY  60
SKGPNGKILI KVSPHFIMSL ICKRRNIAED EVIIDCGESK DICNSPELKK HYDQLVGTRE  120
HLWSPKLQTI SEHETRVSPL RLVVVHEQVD NLHVYLVFQL AVATTRRHNL PTSDSGAFTD  180
WAATTTTSSR ATEDLSLGFN AGPAVVHGGL ASSPAAAGVP SWPLGSSVRY GLQSSAAAAA  240
EMGMVGLRDV YLVSPAYHHH HQNAGVVTGS DQINSNAALG VGMIPLLTAA PPHQQNVEDT  300
DINFLGDGRR WQNSNDNNQT QYLHFKSAHQ MAVASSSNNS GSGSAASGTA TCQDCGNQAK  360
KECKQRRCRT CCKSRGFDCS THVKSTWVSA ARRRERQVMP TTASTSSGTK KPRIVGSQQQ  420
QQATSHTSTS NTPPQSFETS SSRQDGEGCR EAWPGQVRAA AVFKCVRVTA VEDGDDEYAY  480
QAVVKIGGHV FKGFLYDQGL EPKEGFPNMS DLHLGGGANS TNGVSASQPI IDPPNVYGGG  540
GSGGGFYG

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	Rsa1.0_00224.1_g00028.1

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_018442186.1	0.0	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	1e-152	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A397XVM5	0.0	A0A397XVM5_BRACM; Uncharacterized protein
STRING	AT5G12330.4	0.0	(Arabidopsis thaliana)
STRING	XP_006289475.1	0.0	(Capsella rubella)

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	0.0	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]