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_00384.1_g00001.1

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

LBD

Protein Properties

Length: 181aa MW: 19534.1 Da PI: 7.0967

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00384.1_g00001.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	124.6	4.9e-39	11	110	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqq 86 +CaaCk+l+r+C++ C++ap+f ++++ +fa vhk+FGasnv+kll+++pee+r+++++sl+yeA++r++dPvyG++g i +lq++ Rsa1.0_00384.1_g00001.1 11 SCAACKLLKRRCTPTCIFAPHFRSSDQMTFAKVHKVFGASNVSKLLSEVPEEQRQETVNSLAYEADVRLKDPVYGCIGAIASLQKK 96 6*********************************************************************************** PP DUF260 87 leqlkaelallkee 100 + +l++++a+++++ Rsa1.0_00384.1_g00001.1 97 MLELQHDIAVARSR 110 ******999875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	24.557	10	111	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.6E-38	11	108	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 181 aa Download sequence Send to blast
MRGHEPRSSS SCAACKLLKR RCTPTCIFAP HFRSSDQMTF AKVHKVFGAS NVSKLLSEVP 60 EEQRQETVNS LAYEADVRLK DPVYGCIGAI ASLQKKMLEL QHDIAVARSR LLSAAHNNAG 120 GGGVNNNNSS NHVSSLSPLV DDSSPQLAAF LDLVPSYSDL MLLDGSGLDA YLFDIGQPPF 180 V

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-41	6	121	6	121	LOB family transfactor Ramosa2.1
5ly0_B	1e-41	6	121	6	121	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00384.1_g00001.1

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	AC254608	1e-131	AC254608.1 Capsella rubella clone CAP16-D12, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018488521.1	1e-132	PREDICTED: LOB domain-containing protein 21
Swissprot	Q9SRL8	2e-97	LBD21_ARATH; LOB domain-containing protein 21
TrEMBL	A0A078F5A9	1e-102	A0A078F5A9_BRANA; BnaA05g27870D protein
TrEMBL	A0A397ZEE1	1e-102	A0A397ZEE1_BRACM; Uncharacterized protein
STRING	Bra034867.1-P	1e-101	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10255	27	35

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G11090.1	1e-81	LOB domain-containing protein 21

Publications ? help Back to Top
Weber AP,Weber KL,Carr K,Wilkerson C,Ohlrogge JB Sampling the Arabidopsis transcriptome with massively parallel pyrosequencing. Plant Physiol., 2007. 144(1): p. 32-42 [PMID:17351049]