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

Araha.5438s0007.1.p

Organism

Arabidopsis halleri

Taxonomic ID

81970

Taxonomic Lineage

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

Family

SRS

Protein Properties

Length: 142aa MW: 14586.8 Da PI: 5.5286

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araha.5438s0007.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	95	1.6e-29	7	92	79	154
DUF702 79 kskkqsalsstklssaeskkeletss...........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 ++++q+a+s+t++s++ +++++etss +P +v+++avf+cvrv++v+dg++e+aYq++v+igGhvfkG+LydqGle Araha.5438s0007.1.p 7 QQQQQQATSHTSTSNT-PPQSFETSSsrqdgggsreaWPGQVRAAAVFKCVRVTAVEDGDDEYAYQAVVKIGGHVFKGFLYDQGLEP 92 3455555556665554.45566666567777888888***********************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	2.0E-25	8	91	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01624	3.9E-31	42	90	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: 142 aa Download sequence Send to blast
RIAGSQQQQQ QQATSHTSTS NTPPQSFETS SSRQDGGGSR EAWPGQVRAA AVFKCVRVTA 60 VEDGDDEYAY QAVVKIGGHV FKGFLYDQGL EPKEGFPNMS DLHLGGAANN HNGVSASAPI 120 LDPPNVVYGG GGGGSGGGFY G*

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	Araha.5438s0007.1.p

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	BT020614	0.0	BT020614.1 Arabidopsis thaliana At5g12330 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001190295.1	6e-80	Lateral root primordium (LRP) protein-like protein
Refseq	NP_568266.1	7e-81	Lateral root primordium (LRP) protein-like protein
Refseq	NP_974771.1	7e-81	Lateral root primordium (LRP) protein-like protein
Swissprot	Q94CK9	6e-82	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A178URJ4	3e-79	A0A178URJ4_ARATH; LRP1
STRING	Cagra.12655s0001.1.p	8e-82	(Capsella grandiflora)
STRING	AT5G12330.4	2e-79	(Arabidopsis thaliana)

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-83	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Araha.5438s0007.1.p

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]