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_02876.1_g00008.1

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: 211aa MW: 24122.9 Da PI: 6.4997

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_02876.1_g00008.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	121.4	4.8e-38	7	107	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqq 85 +C aCk+lrrkC +Cv+apyf+++q +++fa++h++FGasn +kll++lp e+r +a+ +++yeA+ar++dP+yG+v++i++lqq Rsa1.0_02876.1_g00008.1 7 PCGACKFLRRKCIYGCVFAPYFCHDQgASHFAAIHQVFGASNASKLLSQLPMEDRCEAAITIYYEAQARLQDPIYGCVSHIFSLQQ 92 7***********************89****************************************************** PP DUF260 86 qleqlkaelallkee 100 q+ +l+++l+ lk++ Rsa1.0_02876.1_g00008.1 93 QVVNLQSQLEILKQQ 107 *********9997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.695	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.3E-36	7	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 211 aa Download sequence Send to blast
MTGSGSPCGA CKFLRRKCIY GCVFAPYFCH DQGASHFAAI HQVFGASNAS KLLSQLPMED 60 RCEAAITIYY EAQARLQDPI YGCVSHIFSL QQQVVNLQSQ LEILKQQATQ SMMASDTPSI 120 EDPSYYRDTK LQQSLDLHRH HNNHHQDRSS ETEFNSDLKD IVTSYSELDQ HLKTFNQHHN 180 DARIFYQRVS GTSRIRDDFG EDVIEHILHI N

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	9e-35	3	102	7	105	LOB family transfactor Ramosa2.1
5ly0_B	9e-35	3	102	7	105	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_02876.1_g00008.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:15659631}.

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	AB473848	1e-131	AB473848.1 Arabidopsis thaliana ASL15 mRNA for ASYMMETRIC LEAVES2-like 15 protein, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018481545.1	1e-134	PREDICTED: LOW QUALITY PROTEIN: LOB domain-containing protein 17-like
Swissprot	Q9SLB6	1e-88	LBD17_ARATH; LOB domain-containing protein 17
TrEMBL	A0A078IAR0	1e-113	A0A078IAR0_BRANA; BnaA04g24480D protein
STRING	Bra016876.1-P	1e-112	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM108	28	359

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G42440.1	3e-80	LBD family protein

Publications ? help Back to Top
Xu C, et al. Control of auxin-induced callus formation by bZIP59-LBD complex in Arabidopsis regeneration. Nat Plants, 2018. 4(2): p. 108-115 [PMID:29358751]