PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(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_scaffold00045.244
Common NameAMTR_s00045p00193040
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: 531aa    MW: 61052.2 Da    PI: 7.4957
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00045.244genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B347.24e-159841899
                                              --HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                                        B3 18 lpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88
                                              +p  f++++++  ++    +l+ +sg+ W v++  + + +++ +++GW +Fv ++ L+ g+f+vFk+dg+ 
  evm_27.model.AmTr_v1.0_scaffold00045.244  9 IPHAFLKHIKKAAAG--LAILRGPSGNLWHVEV--NITNDSVAFQEGWPQFVTDHSLQLGEFLVFKHDGDL 75
                                              8999*9777655444..79**************..889999*************************98876 PP

                                              EE..EEEEE-S CS
                                        B3 89 efelvvkvfrk 99
                                              +f   v+++++
  evm_27.model.AmTr_v1.0_scaffold00045.244 76 QF--SVSIYDR 84
                                              66..8888775 PP
2B344.13.8e-144244981594
                                               -EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                                        B3  15 rlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                                                l +pk+f  +h +    s+ +tl d++ + W v +  + + g+  lt+GW+eF+  n Lk gD++vF+
  evm_27.model.AmTr_v1.0_scaffold00045.244 424 ELDIPKEFRVKHLST---SRNMTLWDPKQKDWPVFYENWDTLGG--LTSGWSEFALGNTLKGGDVCVFE 487
                                               478*****9999533...557***************88888888..9********************** PP

                                               E-SSSEE..EE CS
                                        B3  84 ldgrsefelvv 94 
                                               l++++ef+ ++
  evm_27.model.AmTr_v1.0_scaffold00045.244 488 LVNDREFSIHI 498
                                               *9988885444 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086313.324185IPR003340B3 DNA binding domain
SMARTSM010191.9E-5185IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.109.6E-19884IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.75E-17887IPR015300DNA-binding pseudobarrel domain
PfamPF023621.3E-12984IPR003340B3 DNA binding domain
CDDcd100172.93E-14983No hitNo description
Gene3DG3DSA:2.40.330.101.5E-18402499IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.92E-17403499IPR015300DNA-binding pseudobarrel domain
CDDcd100171.43E-13409500No hitNo description
SMARTSM010194.1E-7409502IPR003340B3 DNA binding domain
PROSITE profilePS5086311.773410502IPR003340B3 DNA binding domain
PfamPF023623.7E-12424498IPR003340B3 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: 531 aa     Download sequence    Send to blast
MSIYVLQQIP HAFLKHIKKA AAGLAILRGP SGNLWHVEVN ITNDSVAFQE GWPQFVTDHS  60
LQLGEFLVFK HDGDLQFSVS IYDRYACQKE NAYFAKPSEG VNSSIKKWKM AMENEHTLCL  120
EYPKIGNHKS IVKDKHEMQI VFAQKKYLKN DRASVDQRFS EQQSFRNDRL CVDQSFAKEK  180
SLKNDRVAVD QRVARPSLDI CSDFMTRNGS KQIIAKEDHI VISIKEEDNA YSPKSTAGPS  240
ASATLKLSVS DKNEKPRRHR RKPSLQSGSD LRAGIEGQKS IREQPYILHA FKEEKNFNFP  300
RSTPAPLAIA YDDQYSKTRI EDMQLREVPF SVDLTEKEKE FSHPRSTVLP ITPAALYIAY  360
HDQRQHFMPN QIVTDGRESV FLVKRRHIHE EEKRFAIEAA KSFKSDNPFF TVVEPFYTYP  420
SKVELDIPKE FRVKHLSTSR NMTLWDPKQK DWPVFYENWD TLGGLTSGWS EFALGNTLKG  480
GDVCVFELVN DREFSIHIYP VVKDLIFVDL DPMIFACSSE RLEELKSEND *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A5e-1538449823137B3 domain-containing transcription factor VRN1
4i1k_B5e-1538449823137B3 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_020520526.10.0uncharacterized protein LOC18430268
TrEMBLW1P5G30.0W1P5G3_AMBTC; Uncharacterized protein
STRINGERN021650.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP1256825
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49480.14e-16related 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]