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

Thecc1EG029052t1

Common Name

TCM_029052

Organism

Theobroma cacao

Taxonomic ID

3641

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma

Family

LBD

Protein Properties

Length: 229aa MW: 26129.3 Da PI: 6.8404

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG029052t1	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	131.6	3.2e-41	14	113	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkae 93 aCaaCk++rrkCa+dC+lapyfp++++++f n+hklFG+sn++k++k+l + e+++am+++v++++ara+dPv G++++i++lq+q+e ++ae Thecc1EG029052t1 14 ACAACKYQRRKCAPDCILAPYFPHDRQRQFLNAHKLFGVSNITKIIKNLTPPEKDIAMRTIVFQSDARANDPVGGCYRIIQELQRQIEYSQAE 106 7******************************************************************************************** PP DUF260 94 lallkee 100 l+l+ ++ Thecc1EG029052t1 107 LDLVFHQ 113 *998776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.473	13	114	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	5.2E-38	14	109	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 229 aa Download sequence Send to blast
MSIPRTGSNG TTQACAACKY QRRKCAPDCI LAPYFPHDRQ RQFLNAHKLF GVSNITKIIK 60 NLTPPEKDIA MRTIVFQSDA RANDPVGGCY RIIQELQRQI EYSQAELDLV FHQLAICRAQ 120 AHQQQQQSHL QMHEPGDSSL GCEMVNADPL NSYNSNYYYV EEPHEQQFSV NNNHHHLQEN 180 YDSWGIQEST TLDSLNVKQS FIRVSDNEVK PDLDILVKDI RSGLRLKN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-29	8	114	5	111	LOB family transfactor Ramosa2.1
5ly0_B	1e-29	8	114	5	111	LOB family transfactor Ramosa2.1
Search in ModeBase

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	AC216467	6e-50	AC216467.1 Populus trichocarpa clone POP034-D10, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007024503.2	1e-162	PREDICTED: LOW QUALITY PROTEIN: LOB domain-containing protein 22
Swissprot	Q9LRW1	3e-71	LBD22_ARATH; LOB domain-containing protein 22
TrEMBL	A0A061GB71	1e-171	A0A061GB71_THECC; LOB domain-containing protein 22
STRING	EOY27125	1e-172	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6498	26	45

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G13850.1	2e-64	LOB domain-containing protein 22

Link Out ? help Back to Top
Phytozome	Thecc1EG029052t1
Entrez Gene	18596148

Publications ? help Back to Top
Motamayor JC, et al. The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color. Genome Biol., 2013. 14(6): p. r53 [PMID:23731509] Kim M,Kim MJ,Pandey S,Kim J Expression and Protein Interaction Analyses Reveal Combinatorial Interactions of LBD Transcription Factors During Arabidopsis Pollen Development. Plant Cell Physiol., 2016. 57(11): p. 2291-2299 [PMID:27519310]