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_scaffold00078.88
Common NameAMTR_s00078p00115450, LOC18431958
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family B3
Protein Properties Length: 405aa    MW: 45898.6 Da    PI: 8.709
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00078.88genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B347.63.1e-15381181399
                                              TT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                                       B3  13 sgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                                              s+ l lp +  ++++  +e s   +l ++sg+ W v l  +k+++  +l+kGW++Fvk + L+ g+ +v+
  evm_27.model.AmTr_v1.0_scaffold00078.88  38 SNVLALPLELNAHIK--EEISENAILVSPSGKIWLVGL--NKTKDCAFLQKGWSDFVKGHSLEKGEHLVL 103
                                              456778888765554..568889***************..999999************************ PP

                                              EE-SSSEE..EEEEE-S CS
                                       B3  83 kldgrsefelvvkvfrk 99 
                                              ++dg  +  + vk+f++
  evm_27.model.AmTr_v1.0_scaffold00078.88 104 RYDGGLR--FAVKIFDT 118
                                              **98555..59***997 PP
2B356.84e-18288380198
                                              EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHH CS
                                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeF 68 
                                              f+ v+++s+v k  +l +p +f+++h  +   e++  + l d+sg++W+vk+i++++ ++  l++GW   
  evm_27.model.AmTr_v1.0_scaffold00078.88 288 FIMVMKTSHVYKGFLLNIPLDFVKKHlpD---EKP-AMDLLDPSGKKWKVKYIVSGGFRG-GLSGGWGAV 352
                                              77899*********************532...333.7***************88666555.5999***** PP

                                              HHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                                       B3  69 vkangLkegDfvvFkldgrsefelvvkvfr 98 
                                                 n+L+egD +vF+l+g ++f +v+++fr
  evm_27.model.AmTr_v1.0_scaffold00078.88 353 SLGNNLEEGDACVFELKG-DNF-MVLHIFR 380
                                              ***************998.666.6888887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.35E-1925121IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.0E-1825121IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086312.97126119IPR003340B3 DNA binding domain
CDDcd100176.40E-1527117No hitNo description
SMARTSM010195.3E-1129119IPR003340B3 DNA binding domain
PfamPF023625.5E-1240118IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.8E-23281380IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.12E-24281380IPR015300DNA-binding pseudobarrel domain
CDDcd100171.38E-20286380No hitNo description
PROSITE profilePS5086314.367288382IPR003340B3 DNA binding domain
PfamPF023621.2E-16288380IPR003340B3 DNA binding domain
SMARTSM010194.9E-22288382IPR003340B3 DNA binding domain
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
Sequence ? help Back to Top
Protein Sequence    Length: 405 aa     Download sequence    Send to blast
MEDDRTCLKC ELHCHKQDPF QECRTRPHFL VALVGNFSNV LALPLELNAH IKEEISENAI  60
LVSPSGKIWL VGLNKTKDCA FLQKGWSDFV KGHSLEKGEH LVLRYDGGLR FAVKIFDTNG  120
CHRGEAVHKA IEQSINVSES KSRKILSTMK CLVKRKSSPN EEEEQEQGID TCIEGKINAC  180
EESSKENHHE ENTLMISHSS LHKISCQDTD AQNRSIILSD KEVVPSRTNY YTPKKKYYTP  240
KKKERMTKVG SDTSKNRYFL SNRRMVTQDE RERAVKAANL FESSSPYFIM VMKTSHVYKG  300
FLLNIPLDFV KKHLPDEKPA MDLLDPSGKK WKVKYIVSGG FRGGLSGGWG AVSLGNNLEE  360
GDACVFELKG DNFMVLHIFR VVEEIVPLTK YPASTSERKR KLWA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A8e-2026138522146B3 domain-containing transcription factor VRN1
4i1k_B8e-2026138522146B3 domain-containing transcription factor VRN1
Search in ModeBase
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_006842132.10.0B3 domain-containing protein Os01g0723500
TrEMBLW1P1U60.0W1P1U6_AMBTC; Uncharacterized protein
STRINGERN038070.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP7653917
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49480.14e-17related to vernalization1 1
Publications ? help Back to Top
  1. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]