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 Sof013090
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: 222aa    MW: 26208.5 Da    PI: 9.005
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Sof#S17473139PU_refUnigeneView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H224.75.7e-08731123
               EEET..TTTEEESSHHHHHHHHHHT CS
    zf-C2H2  1 ykCp..dCgksFsrksnLkrHirtH 23
               + Cp  dC+ s++rk++L+rH+ +H
  Sof013090  7 FICPleDCPFSYKRKDHLNRHMLKH 31
               78*********************99 PP
2zf-C2H2157e-053661123
               EEET..TTTEEESSHHHHHHHHHH.T CS
    zf-C2H2  1 ykCp..dCgksFsrksnLkrHirt.H 23
               ++C+   C+++F  k n++rH +  H
  Sof013090 36 FSCTvdGCDRRFGMKANMQRHVKEiH 61
               8999******************9988 PP
3zf-C2H218.46e-067397123
               EEET..TTTEEESSHHHHHHHHHHT CS
    zf-C2H2  1 ykCp..dCgksFsrksnLkrHirtH 23
               + C+   C+k+F+ +s Lk+H  +H
  Sof013090 73 FICKeeGCNKVFRYSSKLKKHEESH 97
               789999***************9988 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.33E-6333No hitNo description
Gene3DG3DSA:3.30.160.602.7E-8333IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003551.9E-4731IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.037736IPR007087Zinc finger, C2H2
PfamPF000961.1E-5731IPR007087Zinc finger, C2H2
PROSITE patternPS000280931IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.0E-93463IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.11E-73462No hitNo description
SMARTSM003557.4E-43661IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.3653666IPR007087Zinc finger, C2H2
PROSITE patternPS0002803861IPR007087Zinc finger, C2H2
SuperFamilySSF576673.73E-57098No hitNo description
Gene3DG3DSA:3.30.160.601.8E-87297IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00497397IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.3677397IPR007087Zinc finger, C2H2
PROSITE patternPS0002807597IPR007087Zinc finger, C2H2
SMARTSM003556.1105130IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280107130IPR007087Zinc finger, C2H2
SMARTSM0035514133154IPR015880Zinc finger, C2H2-like
SuperFamilySSF576678.18E-7148205No hitNo description
SMARTSM0035547163188IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.9E-4192208IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.284194222IPR007087Zinc finger, C2H2
SMARTSM0035558194222IPR015880Zinc finger, C2H2-like
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: 222 aa     Download sequence    Send to blast
XSHERLFICP LEDCPFSYKR KDHLNRHMLK HEGKLFSCTV DGCDRRFGMK ANMQRHVKEI  60
HEDENASKSS QQFICKEEGC NKVFRYSSKL KKHEESHVKL DYVEVLCGEP GCMKMFTNVE  120
YLRAHNQSCH QYVQCEICGE KHLKKNIKRH LQSHDKMPSG ERMKCTFEGW NXSFFNKSXL  180
TKHVKACHDQ LKPFKCQNPR CGKAFTYKPV KDNHEKSVLM IH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A3e-14418840188PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D3e-14418840188PROTEIN (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-143transcription factor IIIA isoform X2
SwissprotQ84MZ44e-69TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A1Z5R4A51e-138A0A1Z5R4A5_SORBI; Uncharacterized protein
STRINGPavir.J03392.1.p1e-123(Panicum virgatum)
STRINGGRMZM2G380515_P021e-125(Zea mays)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.13e-72transcription factor IIIA