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_scaffold00028.18
Common NameAMTR_s00028p00075270
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family MYB_related
Protein Properties Length: 564aa    MW: 63398 Da    PI: 7.2639
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00028.18genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding34.54.7e-1171110343
                                              SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHH CS
                          Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksr 43 
                                               W ++E+ ll+++++++G g+W+ +a+++g +++  qc+++
  evm_27.model.AmTr_v1.0_scaffold00028.18  71 DWNADEEILLLEGIEMYGLGNWAEVAEHVG-TKSKAQCIDH 110
                                              5*****************************.********98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PIRSFPIRSF0250241.1E-1652552IPR016827Transcriptional adaptor 2
SMARTSM002917.0E-11853IPR000433Zinc finger, ZZ-type
PROSITE profilePS5013510.902855IPR000433Zinc finger, ZZ-type
PfamPF005699.2E-101152IPR000433Zinc finger, ZZ-type
CDDcd023359.37E-261260No hitNo description
SuperFamilySSF578501.0E-141275No hitNo description
PROSITE patternPS0135701441IPR000433Zinc finger, ZZ-type
SuperFamilySSF466893.07E-1164117IPR009057Homeodomain-like
PROSITE profilePS5129321.49567119IPR017884SANT domain
SMARTSM007178.2E-868117IPR001005SANT/Myb domain
PfamPF002496.3E-1171110IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.1E-771110IPR009057Homeodomain-like
CDDcd001671.55E-1072110No hitNo description
SuperFamilySSF466895.55E-23462550IPR009057Homeodomain-like
PROSITE profilePS509348.856466561IPR007526SWIRM domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006357Biological Processregulation of transcription from RNA polymerase II promoter
GO:0009631Biological Processcold acclimation
GO:0009733Biological Processresponse to auxin
GO:0009735Biological Processresponse to cytokinin
GO:0016573Biological Processhistone acetylation
GO:0042127Biological Processregulation of cell proliferation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003713Molecular Functiontranscription coactivator activity
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 564 aa     Download sequence    Send to blast
MDRTTEGKRA LYHCNYCNKD ISGKIRIKCT KCPDFDLCVE CFSVGAEVTP HKSNHPYRVM  60
DNLSFPLICS DWNADEEILL LEGIEMYGLG NWAEVAEHVG TKSKAQCIDH HTIAYINSPC  120
YPLPDMSRVN GKNRKELLAM AKVQTEGKKG FSAPGEILPK EESPFSPTRL KVEEAPTGRS  180
PSNLTADGEF SESKINGVGR NSVIGASAGA GKKASNMLQL KDGSDGIKIE NLASVEDSHM  240
DRSLGGKKPK VIGDKGPSMT ELSGYNPKRQ EFDPEYDNDA EQPLAEMEFK DNDTETDREL  300
KLRVLRIYLS RLDERKRRKD FILERNLLYP NPLEKELSKE DTEIYHRCKV FMRFHSQEEH  360
DALIRGFIQE RKIRQRIQEL QEYRAVGCHT LAEGERYAAE KRRKESESNI KKAKEGGHLG  420
ASGKVLQKVN RPMMKEKPES DGSPGSTVDN QKTKGPMAMD SCVNNLSSTR AMDQWDITGL  480
PGANLLSSSE QQLCCQNRLL PAHYLKMKEV LTLEALKGTT VEKSDAYRFF KVDPSKVDKV  540
YDLVTKINCV KGEEFNQCVK VEP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6cw3_E2e-35121275120Transcriptional adapter 2
6cw3_G2e-35121275120Transcriptional adapter 2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1314319RKRRKD
Functional Description ? help Back to Top
Source Description
UniProtRequired for the function of some acidic activation domains, which activate transcription from a distant site. The exact mechanism of action is not yet known. ADA2 and GCN5 function to acetylate nucleosomes, opening up the promoter region (By similarity). {ECO:0000250}.
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_011625124.10.0transcriptional adapter ADA2 isoform X1
SwissprotQ75LL60.0TADA2_ORYSJ; Transcriptional adapter ADA2
TrEMBLW1PRV00.0W1PRV0_AMBTC; Transcriptional adapter
STRINGERN105690.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP2480912
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]