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 Pahal.J00812.1
Organism
Panicum hallii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family C2H2
Protein Properties Length: 435aa    MW: 45994.1 Da    PI: 9.3386
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.J00812.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.94e-067092123
                    EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                    ++C++Cgk F r  nL+ H r H
  Pahal.J00812.1 70 FVCEICGKGFQRDQNLQLHRRGH 92
                    89*******************88 PP
2zf-C2H2130.00031146168123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     +kC +C+k++  +s+ k H +t+
  Pahal.J00812.1 146 WKCDKCSKRYAVQSDWKAHSKTC 168
                     58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.46E-76992No hitNo description
Gene3DG3DSA:3.30.160.601.2E-57092IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.6147092IPR007087Zinc finger, C2H2
SMARTSM003550.0127092IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807292IPR007087Zinc finger, C2H2
SMARTSM00355260111141IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.0E-4134167IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.46E-7141166No hitNo description
SMARTSM00355140146166IPR015880Zinc 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: 435 aa     Download sequence    Send to blast
MASEAASSII SNPLAPLTNL QQPASHQQAA EQQPPLPPRA KKKRNLPGTP DPDAEVIALS  60
PRTLLATNRF VCEICGKGFQ RDQNLQLHRR GHNLPWKLRQ RSGKEPRKRV YVCPEKSCVH  120
HNPARALGDL TGIKKHFCRK HGEKKWKCDK CSKRYAVQSD WKAHSKTCGT REYRCDCGTL  180
FSRRDSFITH RAFCDALAEE TARLSAAAAA PSAATSLCGQ SSSSYLFAGL AVRPNMMLPP  240
APAAPHLKPA GLSLWGGNTL GDIGGGVLAG PGGGAPVPPH LYADLLARTS DAAVQLGLGW  300
LYGNGKLSSS NNASELTTAT TEAESVPSVF SGQQHAKPAA PTDMSATALL QKAAQMGAVT  360
SGNAMSDDAG AATLFQQSAN NNPTGNVAYD DVLSAVRHAG LIKDAAVGRE ETRDFLGVGV  420
QPLCSSSLPL QGWI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-36142206367Zinc finger protein JACKDAW
5b3h_F3e-36142206367Zinc 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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1074680.0AK107468.1 Oryza sativa Japonica Group cDNA clone:002-129-B01, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025818706.10.0zinc finger protein MAGPIE-like
RefseqXP_025818707.10.0zinc finger protein MAGPIE-like
SwissprotQ9ZWA61e-129IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A2S3HZD50.0A0A2S3HZD5_9POAL; Uncharacterized protein
STRINGPavir.Ea00021.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20238320
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.11e-108C2H2 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]