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

Itr_sc048860.1_g00001.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

GRAS

Protein Properties

Length: 82aa MW: 9117.16 Da PI: 8.2237

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc048860.1_g00001.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	37.2	4.3e-12	1	71	298	365
GRAS 298 vacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrve....eesgslvlgWkdr 365 vac +e++er+et+++W++rl++ GF+p+++++++ +++++llr++ +g+++ e+s+ ++l Wk+ Itr_sc048860.1_g00001.1 1 VACPPSESVERRETAARWSHRLHAGGFSPASYGDEVCDDVRALLRRYR-EGWSMGqcsgESSAGIFLSWKNS 71 8999*****************************************9.77777656668899999*986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03514	1.5E-9	1	71	IPR005202	Transcription factor GRAS
PROSITE profile	PS50985	10.992	1	57	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 82 aa Download sequence Send to blast
VACPPSESVE RRETAARWSH RLHAGGFSPA SYGDEVCDDV RALLRRYREG WSMGQCSGES 60 SAGIFLSWKN SRWCGLVCGS RH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_B	8e-21	1	70	395	463	Protein SHORT-ROOT
5b3h_B	7e-21	1	70	341	409	Protein SHORT-ROOT
5b3h_E	7e-21	1	70	341	409	Protein SHORT-ROOT
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor required for the asymmetric cell division involved in radial pattern formation in roots. Essential for both cell division and cell specification (By similarity). {ECO:0000250}.
UniProt	Transcription factor required for the asymmetric cell division involved in radial pattern formation in roots. Essential for both cell division and cell specification. {ECO:0000269\|PubMed:17446396}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019195167.1	7e-38	PREDICTED: protein SHORT-ROOT-like
Swissprot	A2YN56	2e-22	SHR1_ORYSI; Protein SHORT-ROOT 1
Swissprot	Q8H2X8	2e-22	SHR1_ORYSJ; Protein SHORT-ROOT 1
TrEMBL	A0A3Q7FD17	8e-32	A0A3Q7FD17_SOLLC; Uncharacterized protein
TrEMBL	A0A438FBJ0	8e-32	A0A438FBJ0_VITVI; Protein short-root
TrEMBL	A8R3J0	8e-32	A8R3J0_IPONI; Putative SHORT-ROOT protein
STRING	Solyc02g092370.1.1	1e-32	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA2031	24	64

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G37650.1	5e-23	GRAS family protein

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]