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 Lj0g3v0326259.1
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family C2H2
Protein Properties Length: 359aa    MW: 41602.2 Da    PI: 8.1993
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj0g3v0326259.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H219.13.6e-066384223
                     EETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2  2 kCpdCgksFsrksnLkrHirtH 23
                     +C+ Cg sF+ + +L +H+r+H
  Lj0g3v0326259.1 63 TCEQCGASFKKHAYLLQHMRSH 84
                     6********************9 PP
2zf-C2H218.65.3e-0690114123
                      EEET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                      y+C+  dC+ s++rk++L+rH+  H
  Lj0g3v0326259.1  90 YVCTvdDCKASYRRKDHLTRHLLQH 114
                      99*******************9887 PP
3zf-C2H217.79.9e-06119144123
                      EEET..TTTEEESSHHHHHHHHHH.T CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                      +kCp  +C+ sFs +snLkrH    H
  Lj0g3v0326259.1 119 FKCPieNCNSSFSIQSNLKRHVDElH 144
                      89*******************97766 PP
4zf-C2H220.99.8e-07159183123
                      EEET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                      y+Cp   Cgk+F+  s L++H  +H
  Lj0g3v0326259.1 159 YVCPevGCGKVFRYASKLRKHEDSH 183
                      9********************9888 PP
5zf-C2H213.70.00019249274123
                      EEET..TTTEEESSHHHHHHHHHH.T CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                      ++C+   C+ +Fs+k nL++H +  H
  Lj0g3v0326259.1 249 FQCEyeGCDCTFSSKPNLHTHEKAvH 274
                      89*******************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355251941IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.5E-106085IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576677.56E-1260114No hitNo description
PROSITE profilePS5015714.2746289IPR007087Zinc finger, C2H2
SMARTSM003550.0216284IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806484IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.7E-1386117IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.002990114IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.07690119IPR007087Zinc finger, C2H2
PROSITE patternPS00028092114IPR007087Zinc finger, C2H2
SuperFamilySSF576674.46E-8100157No hitNo description
Gene3DG3DSA:3.30.160.609.9E-7118140IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.552119149IPR007087Zinc finger, C2H2
SMARTSM003550.013119144IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280121144IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.5E-8155183IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.86E-5156183No hitNo description
PROSITE profilePS5015711.198159188IPR007087Zinc finger, C2H2
SMARTSM003556.0E-4159183IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280161183IPR007087Zinc finger, C2H2
SMARTSM003551.3191216IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.608.1E-4192216IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280193216IPR007087Zinc finger, C2H2
SMARTSM0035511219240IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.6E-6230271IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.55E-9230288No hitNo description
PROSITE profilePS5015712.715249279IPR007087Zinc finger, C2H2
SMARTSM003550.0031249274IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280251274IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.2E-6273303IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003555.7280306IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280282306IPR007087Zinc 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: 359 aa     Download sequence    Send to blast
MVESMESEEI PKFHDIRRYF CEYCGICRSK KTLITAHINS HHKEEVEKRV EGESETEASK  60
PKTCEQCGAS FKKHAYLLQH MRSHSAERPY VCTVDDCKAS YRRKDHLTRH LLQHQGKTFK  120
CPIENCNSSF SIQSNLKRHV DELHDGKSTS TCVESQKQYV CPEVGCGKVF RYASKLRKHE  180
DSHVKLDSVD VVCLEPGCMK HFTNAQCLRD HVKSCHQYVT CDICGTKQLK KNLKRHLRAH  240
EAGSSSELFQ CEYEGCDCTF SSKPNLHTHE KAVHFKEKPY VCGFPDCGMR FAYKHVRDNH  300
EQTAKHVFTL GDFEEADEQF RSRPRGGRKR VCPTVEMLIR KRVTPPSQLE SWLHMQDSE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2i13_A1e-171930318190Aart
2i13_B1e-171930318190Aart
Search in ModeBase
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
PlantRegMapLj0g3v0326259.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT1430550.0BT143055.1 Lotus japonicus clone JCVI-FLLj-18I21 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004498336.10.0transcription factor IIIA
SwissprotQ84MZ41e-139TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A1S2Y2L60.0A0A1S2Y2L6_CICAR; transcription factor IIIA
STRINGXP_004498336.10.0(Cicer arietinum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF30693370
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-133transcription factor IIIA