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 Niben101Scf09847g00006.1
Organism
Nicotiana benthamiana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family HD-ZIP
Protein Properties Length: 496aa    MW: 55846.9 Da    PI: 5.7734
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf09847g00006.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox64.11.9e-2089144156
                               TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                  Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                               r++ +++t++q++eLe +F+++++p+ ++r+eL+++lg++  q+k+WFqN+R+++k
  Niben101Scf09847g00006.1  89 RKRYHRHTQHQIQELEVYFKECPHPDDKQRKELSRELGIEPLQIKFWFQNKRTQMK 144
                               789999***********************************************999 PP
2START203.96.7e-642774961205
                               HHHHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT- CS
                     START   1 elaeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetl 76 
                               ela +a++e+v+++  +ep+W+ s     + +n++e+ ++f+++ +     +++ea+r+++vv+m++++lve+l+d++  W+ ++
  Niben101Scf09847g00006.1 277 ELAVAAMEEFVQMVHMQEPLWFPSIengtSLLNEEEYFRIFPRGIGpkpegFKTEASRETAVVIMNHVNLVEILMDVN-HWSSMF 360
                               57899********************999999************999********************************.****** PP

                               S....EEEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSE CS
                     START  77 a....kaetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpS 150
                                    +a+t++ +s+g      galq++ ae q++sp vp R+ +fvRy+++  +g+w++vd+S+d+ +  p    ++R++++pS
  Niben101Scf09847g00006.1 361 SgvvsRASTIDELSTGvagninGALQVILAEIQVPSPQVPtRECYFVRYCKRRVDGTWAVVDISLDHLRAIP----SARCRRRPS 441
                               **********************************************************************99....5******** PP

                               EEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS
                     START 151 giliepksnghskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqce 205
                               g+li++++ng+skvtwveh++++++ +h ++++lv+sgla+gak+w atl+rqce
  Niben101Scf09847g00006.1 442 GCLIQEMPNGYSKVTWVEHIEVDDSAVHDIYKPLVSSGLAFGAKRWIATLDRQCE 496
                               ******************************************************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.603.7E-1975128IPR009057Homeodomain-like
SuperFamilySSF466895.85E-1976147IPR009057Homeodomain-like
PROSITE profilePS5007116.69886146IPR001356Homeobox domain
SMARTSM003893.3E-1888150IPR001356Homeobox domain
CDDcd000864.73E-1889147No hitNo description
PfamPF000466.0E-1889144IPR001356Homeobox domain
PROSITE patternPS000270121144IPR017970Homeobox, conserved site
Gene3DG3DSA:1.10.10.604.1E-4129171IPR009057Homeodomain-like
SuperFamilySSF559614.53E-34268496No hitNo description
PROSITE profilePS5084842.564268496IPR002913START domain
CDDcd088751.49E-123272496No hitNo description
SMARTSM002343.7E-58277496IPR002913START domain
PfamPF018522.1E-53278496IPR002913START domain
Gene3DG3DSA:3.30.530.201.9E-7344491IPR023393START-like domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 496 aa     Download sequence    Send to blast
MPSRISRQAN KMSSLVVNDG TDIGFSSSGF PLGQSSSMMD SQLHSLDMLS NTSESEMPRL  60
SSEDFGSKSG NEGNSVGDEQ DFNNKGLKRK RYHRHTQHQI QELEVYFKEC PHPDDKQRKE  120
LSRELGIEPL QIKFWFQNKR TQMKTKNERS DNSQLRAENE KLRAENLRFR EALGNVSCPN  180
CGGQPPPIGE MSYDEHHLRL ENTRLREEIE RISNIASKYV GKPFSNHNNG YSPPLDLVVP  240
AFSTPQSVNG DAYGDGEDII ISSIIGPTDA EKPFIIELAV AAMEEFVQMV HMQEPLWFPS  300
IENGTSLLNE EEYFRIFPRG IGPKPEGFKT EASRETAVVI MNHVNLVEIL MDVNHWSSMF  360
SGVVSRASTI DELSTGVAGN INGALQVILA EIQVPSPQVP TRECYFVRYC KRRVDGTWAV  420
VDISLDHLRA IPSARCRRRP SGCLIQEMPN GYSKVTWVEH IEVDDSAVHD IYKPLVSSGL  480
AFGAKRWIAT LDRQCE
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds to the L1 box DNA sequence 5'-TAAATG[CT]A-3'. Plays a role in maintaining the identity of L1 cells, possibly by interacting with their L1 box or other target-gene promoters. Functionally redundant to ATML1. {ECO:0000269|PubMed:12505995}.
UniProtProbable transcription factor that may be involved in protoderm differentiation and radial pattern formation during early embryogenesis. {ECO:0000269|PubMed:11846882}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009766038.10.0PREDICTED: homeobox-leucine zipper protein HDG2-like
RefseqXP_016447957.10.0PREDICTED: homeobox-leucine zipper protein HDG2-like
SwissprotQ6ZAR00.0ROC1_ORYSJ; Homeobox-leucine zipper protein ROC1
SwissprotQ93V990.0PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBLA0A1S3Y7I30.0A0A1S3Y7I3_TOBAC; homeobox-leucine zipper protein HDG2-like
TrEMBLA0A1U7VI760.0A0A1U7VI76_NICSY; homeobox-leucine zipper protein HDG2-like
STRINGXP_009766038.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA9322491
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G04890.10.0protodermal factor 2
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Lee JH, et al.
    Characterization of Arabidopsis and rice DWD proteins and their roles as substrate receptors for CUL4-RING E3 ubiquitin ligases.
    Plant Cell, 2008. 20(1): p. 152-67
    [PMID:18223036]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. Yi J, et al.
    OsMPK6 plays a critical role in cell differentiation during early embryogenesis in Oryza sativa.
    J. Exp. Bot., 2016. 67(8): p. 2425-37
    [PMID:26912801]
  5. Dou M,Cheng S,Zhao B,Xuan Y,Shao M
    The Indeterminate Domain Protein ROC1 Regulates Chilling Tolerance via Activation of DREB1B/CBF1 in Rice.
    Int J Mol Sci, 2016. 17(3): p. 233
    [PMID:26927068]
  6. Chou IT,Gasser CS
    Characterization of the cyclophilin gene family of Arabidopsis thaliana and phylogenetic analysis of known cyclophilin proteins.
    Plant Mol. Biol., 1997. 35(6): p. 873-92
    [PMID:9426607]