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 Gorai.009G288800.5
Common NameB456_009G288800
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family C2H2
Protein Properties Length: 215aa    MW: 24437 Da    PI: 8.8394
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G288800.5genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H219.72.3e-062448123
                        EEET..TTTEEESSHHHHHHHHHHT CS
             zf-C2H2  1 ykCp..dCgksFsrksnLkrHirtH 23
                        y+C+   Cgk+F  ks Lk+H  +H
  Gorai.009G288800.5 24 YVCQevGCGKVFEFKSKLKKHEDSH 48
                        99*******************9888 PP
2zf-C2H216.91.8e-05103127223
                         EET..TTTEEESSHHHHHHHHHH.T CS
             zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                         kC+   C  +Fs+ksnL++H +  H
  Gorai.009G288800.5 103 KCNfeGCLHTFSTKSNLRQHVKAvH 127
                         79999***************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.8E-72048IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.08E-52148No hitNo description
PROSITE profilePS5015710.9072453IPR007087Zinc finger, C2H2
SMARTSM003550.012448IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002802648IPR007087Zinc finger, C2H2
SMARTSM003552204968IPR015880Zinc finger, C2H2-like
SMARTSM00355187192IPR015880Zinc finger, C2H2-like
SuperFamilySSF576672.82E-884140No hitNo description
PROSITE profilePS5015711.635102132IPR007087Zinc finger, C2H2
SMARTSM003550.0021102127IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.9E-6103127IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280104127IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.9E-4128155IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003558.7133159IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280135159IPR007087Zinc 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: 215 aa     Download sequence    Send to blast
MKRHLKEFHD EESSDLDAGS QKQYVCQEVG CGKVFEFKSK LKKHEDSHGC MKYFTNEQCL  60
KAHVLSSHAY INCQICGAKQ LKKNIKRHLR SHEPGGVESE RIKCNFEGCL HTFSTKSNLR  120
QHVKAVHEEL KPFACSFFGC GMRFSYKHVR DNHEKSGCHV YTPGNFLETD EQFRSKPRGG  180
LKRTCPTVEM LVRKRVTPPQ MDATMDLGPA PACS*
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016686898.11e-154PREDICTED: transcription factor IIIA-like isoform X2
SwissprotQ84MZ42e-80TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A0D2S9L11e-158A0A0D2S9L1_GOSRA; Uncharacterized protein
STRINGGorai.009G288800.11e-153(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.12e-83transcription factor IIIA
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]