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 Zpz_sc01251.1.g00010.1.am.mkhc
Organism
Zoysia pacifica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Zoysieae; Zoysiinae; Zoysia
Family B3
Protein Properties Length: 350aa    MW: 39122.7 Da    PI: 6.8366
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Zpz_sc01251.1.g00010.1.am.mkhcgenomeZGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3413.3e-13244328383
                                     EE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEE.TTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--T CS
                              B3   3 kvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltled.esgrsWevkliy..rkksgryvltkGWkeFvkangLke 76 
                                     k+lt+sdv + gr+vlpkk ae+    +++  +  l++ d     +W++k+++  ++ks++y+l+    eFvk +gL++
  Zpz_sc01251.1.g00010.1.am.mkhc 244 KELTKSDVANVGRIVLPKKDAEASlpPLVQGDPLILQMDDmVLPITWKFKYRFwpNNKSRMYILE-AAGEFVKTHGLQA 321
                                     899******************99999666666666777774455*******99888888888888.99*********** PP

                                     T-EEEEE CS
                              B3  77 gDfvvFk 83 
                                     gD ++++
  Zpz_sc01251.1.g00010.1.am.mkhc 322 GDALIIY 328
                                     ****998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019369.94E-15241330IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.5E-20241340IPR015300DNA-binding pseudobarrel domain
CDDcd100171.73E-19241339No hitNo description
SMARTSM010191.8E-7242342IPR003340B3 DNA binding domain
PfamPF023621.1E-9244328IPR003340B3 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:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 350 aa     Download sequence    Send to blast
MRTGHILCQS HKSSLSTGKE RERGEREREV GWAEVDEEEL VSCGRPHPFP FSPFKNHQEA  60
GMGQMGAGDG DGGGGHPHQY YYQALLAAMQ NPDQTLHPFS IPFYDGQGTD ASLPNAALHS  120
HIPRGFSDWS ASNSAFASLA GQPPATTNPP FSYNLSPSYA LWNHYPINKN EAYSYLAPTE  180
EHACTLHRTH RQDKESVRSN DEMEIRNSGE FHRETVGTLP ESKQVHDRCT TKFNSGEYQV  240
ILRKELTKSD VANVGRIVLP KKDAEASLPP LVQGDPLILQ MDDMVLPITW KFKYRFWPNN  300
KSRMYILEAA GEFVKTHGLQ AGDALIIYKN SIPGKFIIRG EKAIQQATNS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9c_A2e-302313302101B3 domain-containing transcription factor LEC2
6j9c_D2e-302313302101B3 domain-containing transcription factor LEC2
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription regulator involved in iron deficiency response and tolerance. May regulate directly iron transporters or other transcription factors involved in iron-deficiency response. Binds specifically to the DNA sequence 5'-CATGC-3' of the IDE1 element found in the promoter of the barley iron deficiency-inducible gene IDS2. {ECO:0000269|PubMed:18025467}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapZpz_sc01251.1.g00010.1.am.mkhc
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated during the early stage of iron deficiency (at protein level). {ECO:0000269|PubMed:27137867}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0389521e-117BT038952.1 Zea mays full-length cDNA clone ZM_BFb0345D11 mRNA, complete cds.
GenBankJX4285221e-117JX428522.1 Zea mays subsp. mays clone pUT3121 ABI47 ABI3VP1 type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001140504.11e-130putative B3 DNA binding domain family protein
SwissprotQ6Z1Z32e-96IDEF1_ORYSJ; B3 domain-containing protein IDEF1
TrEMBLA0A0A8XSY41e-135A0A0A8XSY4_ARUDO; Uncharacterized protein
STRINGGRMZM2G125596_P011e-130(Zea mays)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP113462831
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G24650.13e-33B3 family protein
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. Kobayashi T, et al.
    The rice transcription factor IDEF1 is essential for the early response to iron deficiency, and induces vegetative expression of late embryogenesis abundant genes.
    Plant J., 2009. 60(6): p. 948-61
    [PMID:19737364]
  3. Kobayashi T, et al.
    The spatial expression and regulation of transcription factors IDEF1 and IDEF2.
    Ann. Bot., 2010. 105(7): p. 1109-17
    [PMID:20197292]
  4. Kobayashi T, et al.
    The rice transcription factor IDEF1 directly binds to iron and other divalent metals for sensing cellular iron status.
    Plant J., 2012. 69(1): p. 81-91
    [PMID:21880076]
  5. Itai RN,Ogo Y,Kobayashi T,Nakanishi H,Nishizawa NK
    Rice genes involved in phytosiderophore biosynthesis are synchronously regulated during the early stages of iron deficiency in roots.
    Rice (N Y), 2013. 6(1): p. 16
    [PMID:24280375]
  6. Kobayashi T,Nishizawa NK
    Iron sensors and signals in response to iron deficiency.
    Plant Sci., 2014. 224: p. 36-43
    [PMID:24908504]
  7. Kobayashi T,Nakanishi Itai R,Nishizawa NK
    Iron deficiency responses in rice roots.
    Rice (N Y), 2014. 7(1): p. 27
    [PMID:26224556]
  8. Tan S, et al.
    CSN6, a subunit of the COP9 signalosome, is involved in early response to iron deficiency in Oryza sativa.
    Sci Rep, 2016. 6: p. 25485
    [PMID:27137867]
  9. Kobayashi T, et al.
    Jasmonate signaling is activated in the very early stages of iron deficiency responses in rice roots.
    Plant Mol. Biol., 2016. 91(4-5): p. 533-47
    [PMID:27143046]