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 Ciclev10012380m
Common NameCICLE_v10012016mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family C2H2
Protein Properties Length: 288aa    MW: 33459.2 Da    PI: 9.0778
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10012380mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2187.9e-061640123
                     EEET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2  1 ykCp..dCgksFsrksnLkrHirtH 23
                     ++C+  dC+ s++rk++L+rH+ +H
  Ciclev10012380m 16 FRCSvdDCHASYRRKDHLTRHLLRH 40
                     89*********************99 PP
2zf-C2H215.64.5e-054570123
                     EEET..TTTEEESSHHHHHHHHHH.T CS
          zf-C2H2  1 ykCp..dCgksFsrksnLkrHirt.H 23
                     +kCp  +C++ F+ + n+krH +  H
  Ciclev10012380m 45 FKCPieNCNREFTIQGNMKRHVKElH 70
                     89********************9986 PP
3zf-C2H218.65.2e-0685109123
                      EEET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                      y C+   Cgk+F+  s L++H  +H
  Ciclev10012380m  85 YICQeiGCGKVFKYASKLRQHEDSH 109
                      89*******************9888 PP
4zf-C2H215.84e-05176200223
                      EET..TTTEEESSHHHHHHHHHH.T CS
          zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                      kC+   C  sFs++snL++H +  H
  Ciclev10012380m 176 KCQfkGCLLSFSTNSNLRQHVKAvH 200
                      688889**************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.7E-61342No hitNo description
Gene3DG3DSA:3.30.160.605.6E-91342IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.8271645IPR007087Zinc finger, C2H2
SMARTSM003550.00661640IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002801840IPR007087Zinc finger, C2H2
SuperFamilySSF576671.85E-64371No hitNo description
Gene3DG3DSA:3.30.160.601.8E-64367IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.6374576IPR007087Zinc finger, C2H2
SMARTSM003550.00154570IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002804771IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.5E-877109IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.78E-581109No hitNo description
PROSITE profilePS5015711.2485114IPR007087Zinc finger, C2H2
SMARTSM003550.003385109IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028087109IPR007087Zinc finger, C2H2
SMARTSM003553.6117142IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280119142IPR007087Zinc finger, C2H2
SMARTSM0035520145166IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.607.4E-6156197IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.17E-8157213No hitNo description
PROSITE profilePS5015710.928175205IPR007087Zinc finger, C2H2
SMARTSM003550.011175200IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280177200IPR007087Zinc finger, C2H2
SMARTSM003558.6206231IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280208232IPR007087Zinc 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
Sequence ? help Back to Top
Protein Sequence    Length: 288 aa     Download sequence    Send to blast
MQWITADSFD LLQRPFRCSV DDCHASYRRK DHLTRHLLRH QGKLFKCPIE NCNREFTIQG  60
NMKRHVKELH HEGTTSTDSG DQKQYICQEI GCGKVFKYAS KLRQHEDSHV NLDSVEAFCS  120
APGCMKYFTN KQCLEAHIRS CHQYIPCEIC GSMQLKKNIK RHVRTHEARD LSERIKCQFK  180
GCLLSFSTNS NLRQHVKAVH YEIKPFACSF FGCGMRFAFK HVRDNHEKSG HHVYSSGDFV  240
ESDERFRSRE RGGRKRKCPT VEMLIRKRVT LPSPTQTCNT KIDDTPD*
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
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006430925.10.0transcription factor IIIA isoform X1
SwissprotQ84MZ44e-89TF3A_ARATH; Transcription factor IIIA
TrEMBLV4STX40.0V4STX4_9ROSI; Uncharacterized protein
STRINGXP_006430925.10.0(Citrus clementina)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.11e-83transcription factor IIIA