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 BGIOSGA019080-PA
Common NameOsI_18246
Organism
Oryza sativa subsp. indica
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; Oryza sativa
Family C2H2
Protein Properties Length: 479aa    MW: 54026.2 Da    PI: 8.3046
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
BGIOSGA019080-PAgenomeRISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H219.33.1e-06207231123
                       EEET..TTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                       ++C+   C+ s+srk++L+rH+ tH
  BGIOSGA019080-PA 207 FSCHvdGCPFSYSRKDHLNRHLLTH 231
                       89*********************99 PP
2zf-C2H210.90.0015236261123
                       EEET..TTTEEESSHHHHHHHHHH.T CS
           zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                       + Cp   C++ F+ k n +rH +  H
  BGIOSGA019080-PA 236 FACPmeGCNRKFTIKGNIQRHVQEmH 261
                       78*******************98877 PP
3zf-C2H220.41.4e-06273297123
                       EEET..TTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                       + Cp  +Cgk+F+  s L++H  +H
  BGIOSGA019080-PA 273 FICPeeNCGKTFKYASKLQKHEESH 297
                       78*******************9988 PP
4zf-C2H216.52.3e-05364388223
                       EET..TTTEEESSHHHHHHHHHH.T CS
           zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                       +C+  dC+ sFs ksnL +H +  H
  BGIOSGA019080-PA 364 RCHlkDCKLSFSKKSNLDKHVKAvH 388
                       7*******************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.603.6E-9204233IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.63E-6204233No hitNo description
SMARTSM003550.0016207231IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.349207236IPR007087Zinc finger, C2H2
PROSITE patternPS000280209231IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.5E-6234262IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.39E-5234262No hitNo description
SMARTSM003550.0019236261IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.866236266IPR007087Zinc finger, C2H2
PROSITE patternPS000280238261IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.7E-7269297IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.08E-5270299No hitNo description
SMARTSM003550.0018273297IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.24273297IPR007087Zinc finger, C2H2
PROSITE patternPS000280275297IPR007087Zinc finger, C2H2
SMARTSM003557.8305330IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280307330IPR007087Zinc finger, C2H2
SMARTSM0035513333354IPR015880Zinc finger, C2H2-like
SuperFamilySSF576673.43E-7344405No hitNo description
SMARTSM003550.031363388IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.967363393IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.7E-5364389IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280365388IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.1E-6390416IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003553.5394420IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.974394425IPR007087Zinc finger, C2H2
PROSITE patternPS000280396420IPR007087Zinc 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: 479 aa     Download sequence    Send to blast
MPMPIGPGIR GYPDPWVKLP SPGTREGTVE GENEGTHAGL RWYPNPAPAF SNPNPLRLAY  60
STTASTAWFE SRVSPSPKMG SVELGAEERE VAGGEGGSKG AAPPARDIRR YKCDFCSVDE  120
VDDLDDYLGR GGGETCKEMD HDCKHWIPEN SKMREGLEWT STRMGRPFWE APSRMPLSRS  180
SSVSGWGDSP EKLHQECLVH TLFQRPFSCH VDGCPFSYSR KDHLNRHLLT HQGKLFACPM  240
EGCNRKFTIK GNIQRHVQEM HKDGSPCESK KEFICPEENC GKTFKYASKL QKHEESHVKL  300
DYSEVICCEP GCMKAFTNLE CLKAHNKSCH RHVVCDVCGT KQLKKNFKRH QRMHEGSCVT  360
ERVRCHLKDC KLSFSKKSNL DKHVKAVHEQ KRPFVCGFSG CGKSFSYKHV RDNHEKSSAH  420
VYVQANFEEI DGERPRQAGG RKRKAIPVES LMRKRVAAPD DDAPACDDGT EYLRWLLSG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A2e-1320432740157PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D2e-1320432740157PROTEIN (TRANSCRIPTION FACTOR IIIA)
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.331400.0callus| flower| leaf| panicle| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329868400.0
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1016310.0AK101631.1 Oryza sativa Japonica Group cDNA clone:J033054O17, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015637660.10.0transcription factor IIIA isoform X1
SwissprotQ84MZ42e-88TF3A_ARATH; Transcription factor IIIA
TrEMBLB8AXC20.0B8AXC2_ORYSI; Uncharacterized protein
STRINGORUFI05G01600.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP23823882
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.14e-90transcription factor IIIA