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

Cagra.3784s0003.1.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

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

Family

SRS

Protein Properties

Length: 322aa MW: 34032 Da PI: 6.7258

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.3784s0003.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	225.8	8e-70	87	246	2	154
DUF702 2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa........aeaaskrkrelkskkq 83 rs t+sC+dCGnqakkdC+h+RCRtCCksrgfdC+thv+stW+p+a+rrerqqql++++s + ++ +kr+r++ + + Cagra.3784s0003.1.p 87 RSITISCRDCGNQAKKDCTHMRCRTCCKSRGFDCSTHVRSTWIPVARRRERQQQLHMSTSGGDGAGsgsggaggGSSIPKRHRDT-TLPA 175 67899*************************************************99887655446789999889999999997.7778 PP DUF702 84 salsstklssaeskkeletsslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 ++ss++l+s ++ e+ +s+P evss+a+frcv++s+vddg+ ++aYqt+v+igGh+fkGiLydqG+e+ Cagra.3784s0003.1.p 176 GTSSSSRLPSDSAGLEMGEASFPGEVSSDALFRCVKMSGVDDGDGQYAYQTTVNIGGHLFKGILYDQGPES 246 8889999************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	2.8E-63	90	245	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	3.2E-27	92	134	IPR006510	Zinc finger, lateral root primordium type 1
Gene3D	G3DSA:2.30.27.10	8.8E-5	121	180	No hit	No description
TIGRFAMs	TIGR01624	2.1E-29	197	244	IPR006511	Lateral Root Primordium type 1, C-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010051	Biological Process	xylem and phloem pattern formation
GO:0010252	Biological Process	auxin homeostasis
GO:0048479	Biological Process	style development
GO:0048480	Biological Process	stigma development

Sequence ? help Back to Top
Protein Sequence Length: 322 aa Download sequence Send to blast
MAGIFSLGGN NNNGDQEEEN QQQQKTNWVW YRSNANTTNI NQGSSQQIWQ IPPEQMLMHH 60 HPHPQQQSLD LYPGHQIDVS DLATSSRSIT ISCRDCGNQA KKDCTHMRCR TCCKSRGFDC 120 STHVRSTWIP VARRRERQQQ LHMSTSGGDG AGSGSGGAGG GSSIPKRHRD TTLPAGTSSS 180 SRLPSDSAGL EMGEASFPGE VSSDALFRCV KMSGVDDGDG QYAYQTTVNI GGHLFKGILY 240 DQGPESSYMS AGSGGSDHQS SSAGGGGGGN PFNPSIVADG GGGGSSAMFV DPNSGGYYSS 300 NMTTSVFMPP GTQFYQNPPR S*

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). {ECO:0000269\|PubMed:12361963, ECO:0000269\|PubMed:16740145, ECO:0000269\|PubMed:16740146, ECO:0000269\|PubMed:18811619}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.3784s0003.1.p

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	AL022141	0.0	AL022141.1 Arabidopsis thaliana DNA chromosome 4, BAC clone F23E13 (ESSAII project).
GenBank	AL161589	0.0	AL161589.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 85.
GenBank	CP002687	0.0	CP002687.1 Arabidopsis thaliana chromosome 4 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006284108.1	0.0	protein SHI RELATED SEQUENCE 2
Swissprot	O65517	1e-171	SRS2_ARATH; Protein SHI RELATED SEQUENCE 2
TrEMBL	R0F6A6	0.0	R0F6A6_9BRAS; Uncharacterized protein
STRING	Cagra.3784s0003.1.p	0.0	(Capsella grandiflora)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13648	17	27

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36260.1	1e-154	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Cagra.3784s0003.1.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]