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

RrC3790_p2

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: 275aa MW: 29810.4 Da PI: 11.1903

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC3790_p2	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	185.5	2.1e-57	82	229	15	154
DUF702 15 akkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssaeskkeletss......... 104 akk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + + + ++ ++++ +k++r ++q+++s+t++s++ ++++l+tss RrC3790_p2 82 AKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTRNPTAGSSPSTSSGTKKPRIA-GSQQQTTSHTSTSNT-PPQSLDTSSsrkdggpre 178 9***********************************99999988888888899999999987.566666777776666.566777777799** PP DUF702 105 .lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 lP +v+++avf+cv+v++++dg++e+aYq++v+igGh+fkG+LydqGle RrC3790_p2 179 aLPGQVKAAAVFKCVKVTAMEDGDDEYAYQAVVKIGGHIFKGFLYDQGLEP 229 **********************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	3.4E-52	81	228	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	5.0E-20	82	116	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	5.0E-29	180	227	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 275 aa Download sequence Send to blast
MQRRHPSASE LFLFSQRLRR SSSIKTWKTP TLTSSETAGD GRTTTAATTR RSIFGSRVRL 60 WHRVRTTRGR AQREPPRVKT VAKKECKQRR CRTCCKSRGF DCSTHVKSTW VSAARRRERQ 120 VMPTRNPTAG SSPSTSSGTK KPRIAGSQQQ TTSHTSTSNT PPQSLDTSSS RKDGGPREAL 180 PGQVKAAAVF KCVKVTAMED GDDEYAYQAV VKIGGHIFKG FLYDQGLEPK EGFPNISDLH 240 LGGGASNHNG VSASPPILDP PNVYGGGGAG AGFYG

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_018469892.1	1e-116	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1-like
Swissprot	Q94CK9	1e-103	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A1J3GIS9	1e-109	A0A1J3GIS9_NOCCA; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A1J3IG84	1e-109	A0A1J3IG84_NOCCA; Protein LATERAL ROOT PRIMORDIUM 1
STRING	Bostr.2902s0003.1.p	1e-109	(Boechera stricta)

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	4e-78	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]