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

AMDW01126071.1_FGP004

Organism

Oryza longistaminata

Taxonomic ID

4528

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

LBD

Protein Properties

Length: 156aa MW: 17400.9 Da PI: 7.0833

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AMDW01126071.1_FGP004	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	140.5	5.4e-44	9	108	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqle 88 +Ca+Ck+lrr+C+++Cv+apyfpae++++fa+vh++FGasnv+k+l ++p+ +r+da+sslvyeA+ar+rdPvyG+v+ i+ lqqq++ AMDW01126071.1_FGP004 9 PCASCKLLRRRCTSECVFAPYFPAEEAQRFAMVHRVFGASNVSKMLLDVPPPQRPDAVSSLVYEANARMRDPVYGCVAAISFLQQQVS 96 7************************************************************************************* PP DUF260 89 qlkaelallkee 100 ql+ +lal+++e AMDW01126071.1_FGP004 97 QLQMQLALANAE 108 *****99875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.718	8	109	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.1E-43	9	106	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 156 aa Download sequence Send to blast
MAGSGSGTPC ASCKLLRRRC TSECVFAPYF PAEEAQRFAM VHRVFGASNV SKMLLDVPPP 60 QRPDAVSSLV YEANARMRDP VYGCVAAISF LQQQVSQLQM QLALANAETA ALKLQLQQQH 120 QDQDEHHQQQ CILENAAAHH QLMLQEAFLK KESMWT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-46	5	108	7	110	LOB family transfactor Ramosa2.1
5ly0_B	4e-46	5	108	7	110	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AMDW01126071.1_FGP004

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	AK241761	0.0	AK241761.1 Oryza sativa Japonica Group cDNA, clone: J065205C18, full insert sequence.
GenBank	AP014967	0.0	AP014967.1 Oryza sativa Japonica Group DNA, chromosome 11, cultivar: Nipponbare, complete sequence.
GenBank	AP014968	0.0	AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
GenBank	BX000494	0.0	BX000494.2 Oryza sativa chromosome 12, . BAC OSJNBa0052H10 of library OSJNBa from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBank	BX000497	0.0	BX000497.1 Oryza sativa chromosome 11, . BAC OSJNBa0010K05 of library OSJNBa from chromosome 11 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015618081.1	6e-94	LOB domain-containing protein 12
Refseq	XP_015618082.1	6e-94	LOB domain-containing protein 12
Refseq	XP_015618083.1	6e-94	LOB domain-containing protein 12
Refseq	XP_025877106.1	6e-94	LOB domain-containing protein 12
Refseq	XP_025877964.1	6e-94	LOB domain-containing protein 12
Swissprot	Q8LBW3	4e-54	LBD12_ARATH; LOB domain-containing protein 12
TrEMBL	I1R3A9	1e-111	I1R3A9_ORYGL; Uncharacterized protein
STRING	ORGLA12G0001500.1	1e-111	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP882	38	150

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G31320.1	4e-44	LOB domain-containing protein 4

Publications ? help Back to Top
Penfield S, et al. Reserve mobilization in the Arabidopsis endosperm fuels hypocotyl elongation in the dark, is independent of abscisic acid, and requires PHOSPHOENOLPYRUVATE CARBOXYKINASE1. Plant Cell, 2004. 16(10): p. 2705-18 [PMID:15367715]