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 Niben101Scf05190g03007.1
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 C2H2
Protein Properties Length: 440aa    MW: 49018.1 Da    PI: 8.6468
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf05190g03007.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.94e-062749123
                              EEETTTTEEESSHHHHHHHHHHT CS
                   zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                              ++C++Cgk F r  nL+ H r H
  Niben101Scf05190g03007.1 27 FVCEICGKGFQRDQNLQLHRRGH 49
                              89*******************88 PP
2zf-C2H213.60.0002103125123
                               EEETTTTEEESSHHHHHHHHHHT CS
                   zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                               +kC++C+k++  +s+ k H +t+
  Niben101Scf05190g03007.1 103 WKCEKCSKRYAVQSDWKAHSKTC 125
                               58*****************9998 PP
3zf-C2H210.70.0017133151523
                               TTTEEESSHHHHHHHHHHT CS
                   zf-C2H2   5 dCgksFsrksnLkrHirtH 23 
                               dCg+ Fsr++++++H   +
  Niben101Scf05190g03007.1 133 DCGTIFSRRDSFVTHRAFC 151
                               8**************8765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.86E-62649No hitNo description
SMARTSM003550.0122749IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.2E-52749IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.6142749IPR007087Zinc finger, C2H2
PROSITE patternPS0002802949IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.9E-591124IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.86E-698123No hitNo description
SMARTSM00355130103123IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 440 aa     Download sequence    Send to blast
MTEEVISNPE AEVIALSPKT LMATNRFVCE ICGKGFQRDQ NLQLHRRGHN LPWKLKQRTS  60
KEVRKRVYVC PEKSCVHHHA SRALGDLTGI KKHYCRKHGE KKWKCEKCSK RYAVQSDWKA  120
HSKTCGTREY RCDCGTIFSR RDSFVTHRAF CDALAEETAR VTAASNMHNP LVGNNINYHF  180
IGSPLGPNMA QHFSSLFKPI STNNENSDPI MIRDQLSLWN MGQVSQQQEI IGNNNLQEIH  240
QIGPLIETSA AAVYDTNTLP APRSNPLPVN YNHVNWEQLT NTSSANITVP SLFSTQHQSH  300
QQITTSSIAT MSATALLQKA AQIGATTTTT DPSFLGNNFG MNNCNGKNNS VQFQEVNNNK  360
LCGFYVTTTN NSITTSLGSE VDQGSVTEFS TLNQLQMNNP PPKRLHIQTR EDSVTGGQTR  420
DFLGVGVQSI CHPSSINGWI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-3699166370Zinc finger protein JACKDAW
5b3h_F2e-3699166370Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00125DAPTransfer from AT1G03840Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009587634.10.0PREDICTED: zinc finger protein MAGPIE
SwissprotQ9ZWA61e-141IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A1S4A5Z10.0A0A1S4A5Z1_TOBAC; zinc finger protein MAGPIE-like
STRINGXP_009587634.10.0(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10324350
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.21e-138C2H2 family protein
Publications ? help Back to Top
  1. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]