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 Cagra.5996s0004.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family HD-ZIP
Protein Properties Length: 219aa    MW: 25166 Da    PI: 4.9487
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.5996s0004.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox63.33.5e-2057110457
                          -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS
             Homeobox   4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 
                          ++++t+eq++ Le  F  ++++  e++ +LA++lgL+ rqV vWFqNrRa++k+
  Cagra.5996s0004.1.p  57 KRKLTDEQVNMLEMSFGDEHKLESERKDRLAAELGLDPRQVAVWFQNRRARWKN 110
                          4589************************************************95 PP
2HD-ZIP_I/II1253.4e-4056146292
          HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                          +kr+l++eqv++LE+sF  e+kLe+erK +la eLgl+prqvavWFqnrRAR+k+k+lE++y++Lk+++d+++ +++rLe+ev +L+e+l
  Cagra.5996s0004.1.p  56 RKRKLTDEQVNMLEMSFGDEHKLESERKDRLAAELGLDPRQVAVWFQNRRARWKNKRLEEEYNKLKNSHDNVVVDKCRLESEVIKLKEQL 145
                          8***************************************************************************************99 PP

          HD-ZIP_I/II  92 k 92 
                           
  Cagra.5996s0004.1.p 146 Y 146
                          7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003891.0E-1954115IPR001356Homeobox domain
PROSITE profilePS5007116.58456111IPR001356Homeobox domain
CDDcd000861.26E-1656112No hitNo description
SuperFamilySSF466892.14E-1857121IPR009057Homeodomain-like
PfamPF000461.7E-1757110IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.605.9E-2158118IPR009057Homeodomain-like
PRINTSPR000319.4E-68291IPR000047Helix-turn-helix motif
PROSITE patternPS00027086109IPR017970Homeobox, conserved site
PRINTSPR000319.4E-691107IPR000047Helix-turn-helix motif
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009733Biological Processresponse to auxin
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 219 aa     Download sequence    Send to blast
MNNTVDDQNM AFISQLYPDV YTQIVPQPGD VKQPKRRRKK SKGALGSGDG SNCLFRKRKL  60
TDEQVNMLEM SFGDEHKLES ERKDRLAAEL GLDPRQVAVW FQNRRARWKN KRLEEEYNKL  120
KNSHDNVVVD KCRLESEVIK LKEQLYDAER EIQKLAERAE GGSSNSPISS SVSIEANETP  180
FFGDYTVGDD GHDDYDNMFY PLPENSYIDG AEWMSQYI*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13758RKKSKGALGSGDGSNCLFRKRK
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00473DAPTransfer from AT4G36740Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.5996s0004.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By abscisic acid (ABA) and by salt stress. {ECO:0000269|PubMed:16055682}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL1615891e-120AL161589.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 85.
GenBankAL1615901e-120AL161590.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 86.
GenBankCP0026871e-120CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
GenBankZ997081e-120Z99708.1 Arabidopsis thaliana DNA chromosome 4, ESSA I AP2 contig fragment No. 2.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006285103.11e-162homeobox-leucine zipper protein ATHB-40
SwissprotO232081e-135ATB40_ARATH; Homeobox-leucine zipper protein ATHB-40
TrEMBLR0F8R41e-160R0F8R4_9BRAS; Uncharacterized protein
STRINGCagra.5996s0004.1.p1e-163(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM22082677
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36740.11e-136homeobox protein 40
Publications ? help Back to Top
  1. González-Grandío E, et al.
    Abscisic acid signaling is controlled by a BRANCHED1/HD-ZIP I cascade in Arabidopsis axillary buds.
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(2): p. E245-E254
    [PMID:28028241]