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 Pahal.F00405.1
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: 532aa    MW: 55132.6 Da    PI: 9.4454
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.F00405.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.41.3e-056486123
                    EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                    ++C+ C+k F r  nL+ H r H
  Pahal.F00405.1 64 FVCEVCNKGFQREQNLQLHRRGH 86
                    89*******************88 PP
2zf-C2H213.20.00026140162123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     +kC +C+k++  +s+ k H +t+
  Pahal.F00405.1 140 WKCDKCNKRYAVQSDWKAHSKTC 162
                     58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.607.2E-66386IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.72E-76386No hitNo description
SMARTSM003550.00416486IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.0946486IPR007087Zinc finger, C2H2
PfamPF121713.4E-56486IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS0002806686IPR007087Zinc finger, C2H2
SMARTSM00355310105135IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.603.9E-5128161IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.72E-7135160No hitNo description
SMARTSM00355110140160IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 532 aa     Download sequence    Send to blast
MAAAHLFGLG DAQMQPPLPQ QAAPPPPAAQ APAPKKKRNQ PGNPNPDAEV IALSPKTLLA  60
TNRFVCEVCN KGFQREQNLQ LHRRGHNLPW KLKQKNPKET RRRVYLCPEP TCVHHNPSRA  120
LGDLTGIKKH YCRKHGEKKW KCDKCNKRYA VQSDWKAHSK TCGTREYRCD CGTLFSRRDS  180
FITHRAFCDA LAQESARAPP IGAGMYGSGG MALGLSGLAA PQLHSFQDQA HSSATTTISG  240
NPAAQFEHIM PSSAGSPAFR GAQQASSTSS PFYLGGAEDG HQSQPGHTSL LHGKPAFHGL  300
MQLPEQHGQP GSNGLLNLGF FSGASSGQDA RLVFPDQFNA TAGGNGRGDG GEHGNSSANT  360
ESAAIFSGNL MGNQMAGDGG GGFSSSLYNS TETVAPPQMS ATALLQKAAQ MGATTSGGGA  420
GGSVNSLLRG LSSGGALNAR PAGAAGFMAG ESSSSRSTSQ AENESQFRDL MNSLAASGSG  480
GFPGMDDGKL STRDFLGVGG GVVRSMGGAA GLPLRHGAAG IGMGSLDPEM K*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C5e-34136197364Zinc finger protein JACKDAW
5b3h_F5e-34136197364Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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). {ECO:0000269|PubMed:22898356, ECO:0000269|PubMed:24821766}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00255DAPTransfer from AT2G02070Download
Motif logo
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0539560.0BT053956.1 Zea mays full-length cDNA clone ZM_BFc0072P10 mRNA, complete cds.
GenBankEU9759570.0EU975957.1 Zea mays clone 506559 INDETERMINATE-related protein 1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025821061.10.0protein indeterminate-domain 5, chloroplastic-like isoform X1
SwissprotQ9ZUL31e-123IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A2S3I4L50.0A0A2S3I4L5_9POAL; Uncharacterized protein
STRINGPavir.Fb02381.1.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
AT2G02080.11e-112indeterminate(ID)-domain 4
Publications ? help Back to Top
  1. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]