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_009122213.1

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: 183aa MW: 20624.3 Da PI: 6.1496

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009122213.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	115.9	2.5e-36	7	106	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +C aCk+lrrkC+ dCv++pyf eq +++f +vhk+FGasnv+k l +lp ++r++a+ ++ yeA r+ dPvyG+v++i++lqqq+++l++e+ XP_009122213.1 7 SCGACKFLRRKCNIDCVFSPYFSYEQaSSHFSAVHKVFGASNVSKHLLSLPLHQRSAAAITISYEALSRMCDPVYGCVAHIFALQQQVMTLQEEI 101 6*********************9978****************************************************************9 PP DUF260 95 allke 99 + l++ XP_009122213.1 102 EFLGT 106 98765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.686	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.9E-34	7	103	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 183 aa Download sequence Send to blast
MAAHGSSCGA CKFLRRKCNI DCVFSPYFSY EQASSHFSAV HKVFGASNVS KHLLSLPLHQ 60 RSAAAITISY EALSRMCDPV YGCVAHIFAL QQQVMTLQEE IEFLGTHMAN LSNTTQSRSQ 120 PNDMPEFLNQ MTMDTTTGFI DQTVLNNDVG INCIEGFFTN PEEVLVNHPW FQNMDHYYYA 180 PQH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-32	5	108	9	111	LOB family transfactor Ramosa2.1
5ly0_B	2e-32	5	108	9	111	LOB family transfactor Ramosa2.1
Search in ModeBase

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009122213.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:17259263}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009122213.1	1e-138	PREDICTED: LOB domain-containing protein 33
Swissprot	Q9LHS8	1e-101	LBD33_ARATH; LOB domain-containing protein 33
TrEMBL	A0A291LR26	1e-136	A0A291LR26_BRARR; Transcription factor LBD33
TrEMBL	M4CY64	1e-136	M4CY64_BRARP; Uncharacterized protein
STRING	Bra009161.1-P	1e-137	(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
AT5G06080.1	1e-103	LOB domain-containing protein 33

Publications ? help Back to Top
Bargmann BO,Birnbaum KD,Brenner ED An undergraduate study of two transcription factors that promote lateral root formation. Biochem Mol Biol Educ, 2014 May-Jun. 42(3): p. 237-45 [PMID:24615800]