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 Sof011601
Organism
Saccharum officinarum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex
Family C2H2
Protein Properties Length: 236aa    MW: 27376.9 Da    PI: 9.6161
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PUT-157a-Saccharum_officinarum-117999PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H214.97.6e-055075123
               EEET..TTTEEESSHHHHHHHHHH.T CS
    zf-C2H2  1 ykCp..dCgksFsrksnLkrHirt.H 23
               ++C+   C+++F  k n++rH +  H
  Sof011601 50 FSCTvdGCDRRFGMKANMQRHVKEiH 75
               8999******************9988 PP
2zf-C2H218.36.5e-0687111123
                EEET..TTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                + C+   C+k+F+ +s Lk+H  +H
  Sof011601  87 FICKeeGCNKVFRYSSKLKKHEESH 111
                789999***************9988 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.604.9E-94877IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.03E-74876No hitNo description
PROSITE profilePS5015711.3655080IPR007087Zinc finger, C2H2
SMARTSM003557.4E-45075IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002805275IPR007087Zinc finger, C2H2
SuperFamilySSF576674.36E-584112No hitNo description
Gene3DG3DSA:3.30.160.601.9E-886111IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.004987111IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.36787111IPR007087Zinc finger, C2H2
PROSITE patternPS00028089111IPR007087Zinc finger, C2H2
SMARTSM003556.1119144IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280121144IPR007087Zinc finger, C2H2
SMARTSM0035514147168IPR015880Zinc finger, C2H2-like
SuperFamilySSF576679.54E-7162219No hitNo description
SMARTSM0035547177202IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.1E-4206222IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM0035558208236IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.284208236IPR007087Zinc finger, C2H2
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: 236 aa     Download sequence    Send to blast
MTSCEASTRL PQSRSLSRDS LFAHLKTAPS AIKGKIXLNR HMLKHEGKLF SCTVDGCDRR  60
FGMKANMQRH VKEIHEDENA SKSSQQFICK EEGCNKVFRY SSKLKKHEES HVKLDYVEVL  120
CGEPGCMKMF TNVEYLRAHN QSCHQYVQCE ICGEKHLKKN IKRHLQSHDK MPSGERMKCT  180
FEGWNXSFFN KSXLTKHVKA CHDQLKPFKC QNPRCGKAFT YKPVKDNHEK SVLMIH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A2e-113820260188PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D2e-113820260188PROTEIN (TRANSCRIPTION FACTOR IIIA)
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.188190.0inflorescence| leaf| seed
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Both isoforms 1 and 2 transcripts are expressed in seedlings and both TFIIIA and TFIIIA-C are present at similar ratios in 10-day-old seedlings (at protein level). In correlation with the reorganization of 5S rDNA chromatin to a mature state, full-length isoform 1 protein TFIIIA with transcriptional activity accumulates and permits de novo transcription of 5S rRNA. Isoforms 1 and 2 transcripts accumulate in various tissues of the reproductive phase, including flowers and siliques, but only isoform 2 is present in mature seeds. In flowers, both TFIIIA and TFIIIA-C are present at similar ratios (at protein level). Very low amounts of TFIIIA are found in extracts from fresh siliques compared to TFIIIA-C. The amount of full-length TFIIIA protein progressively increases from fresh siliques to seeds concomitant with lower proportions of the shorter TFIIIA-C protein (at protein level) thus leading to 5S rRNA accumulation in the seed. {ECO:0000269|PubMed:22353599}.
UniprotTISSUE SPECIFICITY: Expressed in seedlings, flowers, siliques and seeds. {ECO:0000269|PubMed:22353599}.
Functional Description ? help Back to Top
Source Description
UniProtEssential protein (PubMed:22353599). Isoform 1 is a transcription activator the binds both 5S rDNA and 5S rRNA and stimulates the transcription of 5S rRNA gene (PubMed:12711688, PubMed:22353599). Isoform 1 regulates 5S rRNA levels during development (PubMed:22353599). {ECO:0000269|PubMed:12711688, ECO:0000269|PubMed:22353599}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021301991.11e-128transcription factor IIIA isoform X2
SwissprotQ84MZ42e-61TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A1Z5R4A51e-122A0A1Z5R4A5_SORBI; Uncharacterized protein
STRINGSi020193m1e-108(Setaria italica)
STRINGGRMZM2G380515_P021e-109(Zea mays)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.27e-64transcription factor IIIA