PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GRMZM2G050939_P03
Common NameTFIIIA
Organism
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; Tripsacinae; Zea
Family C2H2
Protein Properties Length: 369aa    MW: 42073.1 Da    PI: 8.6654
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GRMZM2G050939_P03genomeMaizeSequenceView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H222.62.7e-077292323
                       ETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                       C+ Cg+sF+ + +Lk+H+++H
  GRMZM2G050939_P03 72 CEQCGMSFKKQAHLKQHMQSH 92
                       *******************99 PP

2zf-C2H219.52.7e-0698122123
                        EEET..TTTEEESSHHHHHHHHHHT CS
            zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                        ++C+   C+ s+srk++L+rH+ tH
  GRMZM2G050939_P03  98 FSCTvdGCPFSYSRKDHLNRHLLTH 122
                        899999*****************99 PP

3zf-C2H215.83.9e-05127152123
                        EEET..TTTEEESSHHHHHHHHHH.T CS
            zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                        ++Cp   Cg+ F+ k n++rH +  H
  GRMZM2G050939_P03 127 FVCPveGCGRKFNIKGNMQRHVQEiH 152
                        89*******************99877 PP

4zf-C2H219.62.5e-06164188123
                        EEET..TTTEEESSHHHHHHHHHHT CS
            zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                        + Cp  +Cgk F+  s Lk+H  +H
  GRMZM2G050939_P03 164 FICPkvNCGKAFKYASKLKKHEESH 188
                        78*******************9988 PP

5zf-C2H215.93.6e-05255279223
                        EET..TTTEEESSHHHHHHHHHH.T CS
            zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                        kC+  dC+ sFs ksnL +H +  H
  GRMZM2G050939_P03 255 KCHieDCKCSFSKKSNLDKHVKAvH 279
                        7*******************99877 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355142345IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.9837097IPR007087Zinc finger, C2H2
SMARTSM003550.0087092IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.0E-67288IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS0002807292IPR007087Zinc finger, C2H2
SuperFamilySSF576674.1E-1184124No hitNo description
Gene3DG3DSA:3.30.160.606.3E-1489124IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.51598127IPR007087Zinc finger, C2H2
SMARTSM003556.2E-498122IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280100122IPR007087Zinc finger, C2H2
SuperFamilySSF576672.14E-8108158No hitNo description
Gene3DG3DSA:3.30.160.601.3E-7125153IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.365127157IPR007087Zinc finger, C2H2
SMARTSM003551.7E-4127152IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280129152IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.4E-6160188IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.385164193IPR007087Zinc finger, C2H2
SMARTSM003550.0097164188IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280166188IPR007087Zinc finger, C2H2
SMARTSM0035519196221IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280198221IPR007087Zinc finger, C2H2
SMARTSM0035517224245IPR015880Zinc finger, C2H2-like
SuperFamilySSF576676.62E-7235296No hitNo description
PROSITE profilePS5015711.843254284IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.8E-4254279IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.069254279IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280256279IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.605.0E-6280308IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.286285314IPR007087Zinc finger, C2H2
SMARTSM003551.8285311IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280287311IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005730Cellular Componentnucleolus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008097Molecular Function5S rRNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0080084Molecular Function5S rDNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000037anatomyshoot apex
PO:0006310anatomytassel floret
PO:0006339anatomyjuvenile vascular leaf
PO:0006340anatomyadult vascular leaf
PO:0006341anatomyprimary shoot system
PO:0006354anatomyear floret
PO:0006505anatomycentral spike of ear inflorescence
PO:0008018anatomytransition vascular leaf
PO:0009001anatomyfruit
PO:0009009anatomyplant embryo
PO:0009025anatomyvascular leaf
PO:0009054anatomyinflorescence bract
PO:0009066anatomyanther
PO:0009074anatomystyle
PO:0009084anatomypericarp
PO:0009089anatomyendosperm
PO:0020040anatomyleaf base
PO:0020104anatomyleaf sheath
PO:0020126anatomytassel inflorescence
PO:0020127anatomyprimary root
PO:0020136anatomyear inflorescence
PO:0020142anatomystem internode
PO:0020148anatomyshoot apical meristem
PO:0025142anatomyleaf tip
PO:0025287anatomyseedling coleoptile
PO:0001007developmental stagepollen development stage
PO:0001009developmental stageD pollen mother cell meiosis stage
PO:0001052developmental stagevascular leaf expansion stage
PO:0001053developmental stagevascular leaf post-expansion stage
PO:0001083developmental stageinflorescence development stage
PO:0001094developmental stageplant embryo coleoptilar stage
PO:0001095developmental stageplant embryo true leaf formation stage
PO:0001180developmental stageplant proembryo stage
PO:0007001developmental stageearly whole plant fruit ripening stage
PO:0007003developmental stageIL.03 full inflorescence length reached stage
PO:0007006developmental stageIL.00 inflorescence just visible stage
PO:0007015developmental stageradicle emergence stage
PO:0007016developmental stagewhole plant flowering stage
PO:0007022developmental stageseed imbibition stage
PO:0007026developmental stageFL.00 first flower(s) open stage
PO:0007031developmental stagemid whole plant fruit ripening stage
PO:0007032developmental stagewhole plant fruit formation stage up to 10%
PO:0007045developmental stagecoleoptile emergence stage
PO:0007063developmental stageLP.07 seven leaves visible stage
PO:0007065developmental stageLP.05 five leaves visible stage
PO:0007072developmental stageLP.18 eighteen leaves visible stage
PO:0007094developmental stageLP.01 one leaf visible stage
PO:0007101developmental stageLP.09 nine leaves visible stage
PO:0007104developmental stageLP.15 fifteen leaves visible stage
PO:0007106developmental stageLP.03 three leaves visible stage
PO:0007112developmental stage1 main shoot growth stage
PO:0007116developmental stageLP.11 eleven leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007633developmental stageendosperm development stage
PO:0021004developmental stageinflorescence initiation stage
Sequence ? help Back to Top
Protein Sequence    Length: 369 aa     Download sequence    Send to blast
MGEGTESGGG ATTAPPLRYI RCYKCGFCDV VRSKKCLLRA HVLEHHKDEV DALGGYWEGG  60
DAGPRKEISR ACEQCGMSFK KQAHLKQHMQ SHSLERPFSC TVDGCPFSYS RKDHLNRHLL  120
THEGKLFVCP VEGCGRKFNI KGNMQRHVQE IHKDVSPCES KKEFICPKVN CGKAFKYASK  180
LKKHEESHVQ LEYTEVMCCE PGCMKFFSNM ECLKAHNQSC HQYVQCDICG TKQLKKNFQR  240
HHRMHEGSCV TERVKCHIED CKCSFSKKSN LDKHVKAVHE QRRPFVCQFS GCGKRFSYKH  300
VRDNHEKSSA HVHTEGDFVE ADEQRPRSVG GCKRKPVSVE SLMRKRVAAP DDGPAHADAT  360
EYLRWLLSV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A2e-197521820157PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D2e-197521820157PROTEIN (TRANSCRIPTION FACTOR IIIA)
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Zm.304080.0meristem| shoot
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasGRMZM2G050939
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00229DAPTransfer from AT1G72050Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGRMZM2G050939_P03
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0668270.0BT066827.1 Zea mays full-length cDNA clone ZM_BFb0075I12 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008648128.10.0uncharacterized LOC100383605 isoform X1
SwissprotQ84MZ41e-112TF3A_ARATH; Transcription factor IIIA
TrEMBLC0J7J90.0C0J7J9_MAIZE; Transcription factor IIIA ES isoform (Fragment)
STRINGGRMZM2G050939_P020.0(Zea mays)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-112transcription factor IIIA
Publications ? help Back to Top
  1. Fu Y, et al.
    Alternative splicing of anciently exonized 5S rRNA regulates plant transcription factor TFIIIA.
    Genome Res., 2009. 19(5): p. 913-21
    [PMID:19211543]