PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID evm_27.model.AmTr_v1.0_scaffold00001.226
Common NameAMTR_s00001p00218870
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family M-type_MADS
Protein Properties Length: 160aa    MW: 18381.2 Da    PI: 9.5312
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00001.226genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF86.12e-271058250
                                              ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
                                    SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                                              rien  +rqvtfskR++g++KKA E+SvLCda+v++i+fss gklye s
  evm_27.model.AmTr_v1.0_scaffold00001.226 10 RIENGAQRQVTFSKRKAGLFKKAREISVLCDAQVLLIVFSSAGKLYELS 58
                                              8*********************************************977 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004324.5E-38160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.614161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.57E-29184IPR002100Transcription factor, MADS-box
CDDcd002652.18E-36281No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-27323IPR002100Transcription factor, MADS-box
PfamPF003194.8E-241056IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-273859IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 160 aa     Download sequence    Send to blast
MGRGKVELRR IENGAQRQVT FSKRKAGLFK KAREISVLCD AQVLLIVFSS AGKLYELSSP  60
CSFGVKKFME KYERATQSKF WEKEYMDRII QEEIDHLANM EIVHQEEREK LQEKISQIPR  120
NGRPSSPCFT HGLRLNSSHA MMDHELDLKL GPSTMVNHN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-16160160MEF2C
5f28_B3e-16160160MEF2C
5f28_C3e-16160160MEF2C
5f28_D3e-16160160MEF2C
6byy_A3e-16160160MEF2 CHIMERA
6byy_B3e-16160160MEF2 CHIMERA
6byy_C3e-16160160MEF2 CHIMERA
6byy_D3e-16160160MEF2 CHIMERA
6bz1_A3e-16160160MEF2 CHIMERA
6bz1_B3e-16160160MEF2 CHIMERA
6bz1_C3e-16160160MEF2 CHIMERA
6bz1_D3e-16160160MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the development of floral organs. B-class protein required for normal development of lodicules (whorl 2). {ECO:0000269|PubMed:14704206}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011628957.11e-107MADS-box transcription factor 32 isoform X2
SwissprotQ407025e-28MADS2_ORYSJ; MADS-box transcription factor 2
TrEMBLW1NM601e-115W1NM60_AMBTC; Uncharacterized protein
STRINGERM963491e-116(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G14210.17e-28AGAMOUS-like 44
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]