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

XP_009142064.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 199aa MW: 22593.2 Da PI: 6.7258

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009142064.1	genome	NCBI	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.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +C aCk+lrrkC +Cv+apyf+++q +++fa++h++FGasn +kll++lp ++r +a+ +l+yeA+ar++dP+yG+v++i++lqqq+ +l+a+l XP_009142064.1 7 PCGACKFLRRKCIYGCVFAPYFCHDQgASHFAAIHQVFGASNASKLLSQLPMQDRCEAAITLYYEAQARLQDPIYGCVAHIFSLQQQVVNLQAQL 101 7***********************89*************************************************************** PP DUF260 95 allkee 100 + lk++ XP_009142064.1 102 EILKQQ 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	9.7E-36	7	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 199 aa Download sequence Send to blast
MTGSGSPCGA CKFLRRKCIY GCVFAPYFCH DQGASHFAAI HQVFGASNAS KLLSQLPMQD 60 RCEAAITLYY EAQARLQDPI YGCVAHIFSL QQQVVNLQAQ LEILKQQATQ SMMTTDTPSL 120 ENPNYYRDTK LQQLQQSLDL HRHHNRHHQD RSFDTESDSD LRNIMTSYSE LDQHLNTFNQ 180 YHNGGNDVLS ASFGYISYS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-35	3	102	7	105	LOB family transfactor Ramosa2.1
5ly0_B	2e-35	3	102	7	105	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots, stems, leaves and flowers. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009142064.1

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-136	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_009142064.1	1e-148	PREDICTED: LOB domain-containing protein 17
Refseq	XP_013747417.1	1e-148	LOB domain-containing protein 17-like
Swissprot	Q9SLB6	4e-98	LBD17_ARATH; LOB domain-containing protein 17
TrEMBL	A0A291LR05	1e-147	A0A291LR05_BRARR; Transcription factor LBD17
TrEMBL	A0A397ZVQ5	1e-147	A0A397ZVQ5_BRACM; Uncharacterized protein
STRING	Bra016876.1-P	1e-145	(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	1e-90	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]