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 ONIVA02G01060.1
Organism
Oryza nivara
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family C2H2
Protein Properties Length: 418aa    MW: 47750 Da    PI: 8.6166
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA02G01060.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.65.2e-06110132123
                      EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                      ++C+ Cg sF  + +Lk+H+++H
  ONIVA02G01060.1 110 HTCQECGASFQKPAHLKQHMQSH 132
                      79*******************99 PP
2zf-C2H221.85e-07138162123
                      EEET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                      + Cp  dC+ s+ rk++L+rH+ +H
  ONIVA02G01060.1 138 FICPleDCPFSYIRKDHLNRHMLKH 162
                      78*********************99 PP
3zf-C2H215.45.4e-05167192123
                      EEET..TTTEEESSHHHHHHHHHH.T CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                      ++C+   Cg+ Fs k n++rH +  H
  ONIVA02G01060.1 167 FTCSmdGCGRKFSIKANMQRHVKEiH 192
                      89********************9988 PP
4zf-C2H215.64.5e-05204228123
                      EEET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                      ++C+   C+k+F+  s +k+H  +H
  ONIVA02G01060.1 204 FVCKeeGCNKVFKYASKMKKHEESH 228
                      89*******************9988 PP
5zf-C2H217.71e-05294318223
                      EET..TTTEEESSHHHHHHHHHH.T CS
          zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                      kC+   C  sFs+ksnL++Hi+  H
  ONIVA02G01060.1 294 KCSfeGCECSFSNKSNLTKHIKAsH 318
                      688899***************9888 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355246486IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.609.3E-6107129IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0017110132IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.547110137IPR007087Zinc finger, C2H2
PROSITE patternPS000280112132IPR007087Zinc finger, C2H2
SuperFamilySSF576673.2E-11122164No hitNo description
Gene3DG3DSA:3.30.160.606.0E-12130164IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501578.808138167IPR007087Zinc finger, C2H2
SMARTSM003555.5E-4138162IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280140162IPR007087Zinc finger, C2H2
SuperFamilySSF576672.98E-8148196No hitNo description
Gene3DG3DSA:3.30.160.601.2E-7165194IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.154167197IPR007087Zinc finger, C2H2
SMARTSM003553.9E-4167192IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280169192IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.2E-7201228IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.764204228IPR007087Zinc finger, C2H2
SMARTSM003550.0038204228IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280206228IPR007087Zinc finger, C2H2
SMARTSM003555.7236261IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280238261IPR007087Zinc finger, C2H2
SMARTSM0035515264285IPR015880Zinc finger, C2H2-like
SuperFamilySSF576672.72E-7277331No hitNo description
PROSITE profilePS5015711.365293323IPR007087Zinc finger, C2H2
SMARTSM003550.002293318IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.8E-5294318IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280295318IPR007087Zinc finger, C2H2
SMARTSM003555.8324350IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280326350IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 418 aa     Download sequence    Send to blast
MKARRNQEPQ SSLPAAAAAA PSSSRRSAGN HTSSQPRSPP MCSGDDIDGD TRVEATQHRD  60
IRRYKCEFCT VVRSKKCLIR AHMVAHHKEE LDKSEIYKSN GEKVVHEGDH TCQECGASFQ  120
KPAHLKQHMQ SHSDERSFIC PLEDCPFSYI RKDHLNRHML KHQGKLFTCS MDGCGRKFSI  180
KANMQRHVKE IHEDETATKS NRQFVCKEEG CNKVFKYASK MKKHEESHVK LDYVEVVCCE  240
PGCMKTFTNV ECLRAHNQAC HQYVQCDICG EKHLKKNIKR HLRAHEVPST ERIKCSFEGC  300
ECSFSNKSNL TKHIKASHDQ VKPFACRFTG CEKVFPYKHV RDNHEKSSAH VYTQANFTEM  360
DEHLLSCPRG GRKRKAVTVE TLTRKRVTMH GDASSLDNGT EYLRWLLSGG DDDSSQTH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A2e-1711425919158PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D2e-1711425919158PROTEIN (TRANSCRIPTION FACTOR IIIA)
Search in ModeBase
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1004730.0AK100473.1 Oryza sativa Japonica Group cDNA clone:J023093M20, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015626855.10.0transcription factor IIIA isoform X1
SwissprotQ84MZ44e-97TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A0E0G0390.0A0A0E0G039_ORYNI; Uncharacterized protein
STRINGONIVA02G01060.20.0(Oryza nivara)
STRINGORGLA02G0010700.10.0(Oryza glaberrima)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-103transcription factor IIIA