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 Itr_sc000029.1_g00019.1
Organism
Ipomoea trifida
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea
Family C2H2
Protein Properties Length: 415aa    MW: 48097 Da    PI: 8.376
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc000029.1_g00019.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H221.94.5e-076284123
                             EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                             ++C+ Cg sF+ + +Lk+H+++H
  Itr_sc000029.1_g00019.1 62 HTCEECGASFRKPAHLKQHMQSH 84
                             79*******************99 PP
2zf-C2H220.81e-06134158123
                              EEET..TTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                              ++Cp  dC+ sF+rk++L+rH+  H
  Itr_sc000029.1_g00019.1 134 FTCPvdDCKSSFRRKDHLTRHLLQH 158
                              89*******************9887 PP
3zf-C2H214.30.00012163188123
                              EEET..TTTEEESSHHHHHHHHHH.T CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                              ++C+   C++ Fs +sn+krH +  H
  Itr_sc000029.1_g00019.1 163 FECTveCCNRKFSVQSNMKRHVKEmH 188
                              789999****************9988 PP
4zf-C2H218.94e-06202226123
                              EEET..TTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                              y+C+   Cgk+F+  s Lk+H  +H
  Itr_sc000029.1_g00019.1 202 YVCSeaGCGKVFKYASKLKTHEDSH 226
                              99*******************9888 PP
5zf-C2H213.70.00019293317223
                              EET..TTTEEESSHHHHHHHHHH.T CS
                  zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                              kC    C  +F ++snLk+H +  H
  Itr_sc000029.1_g00019.1 293 KCDfeGCEHTFATRSNLKQHVKAcH 317
                              688889***************9955 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576673.25E-81684No hitNo description
SMARTSM00355331840IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.609.3E-76085IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003555.8E-46284IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.1756289IPR007087Zinc finger, C2H2
PROSITE patternPS0002806484IPR007087Zinc finger, C2H2
SuperFamilySSF576671.69E-6131160No hitNo description
Gene3DG3DSA:3.30.160.601.8E-8132160IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.471134163IPR007087Zinc finger, C2H2
SMARTSM003557.0E-4134158IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280136158IPR007087Zinc finger, C2H2
SuperFamilySSF576671.81E-5161189No hitNo description
Gene3DG3DSA:3.30.160.601.0E-5161189IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.305163188IPR007087Zinc finger, C2H2
SMARTSM003550.24163188IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280165188IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.1E-8195226IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.12E-5199228No hitNo description
PROSITE profilePS5015711.198202231IPR007087Zinc finger, C2H2
SMARTSM003550.0022202226IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280204226IPR007087Zinc finger, C2H2
SMARTSM003550.38234259IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280236259IPR007087Zinc finger, C2H2
SMARTSM003558.5262283IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.7E-6273314IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576679.68E-8274330No hitNo description
SMARTSM003550.0042292317IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.094292322IPR007087Zinc finger, C2H2
PROSITE patternPS000280294317IPR007087Zinc finger, C2H2
SMARTSM003559.1323349IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280325349IPR007087Zinc 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: 415 aa     Download sequence    Send to blast
MEEVEQNRPV IFKDIRRYYC EFCGICRSKK ALISSHVLTH HQDELKAKGE SDESKEEGPK  60
MHTCEECGAS FRKPAHLKQH MQSHSLEVRR SSPMDVMKLV GGPPEKLHQV SLNHAVFSWA  120
KRFPFSFLHF LKPFTCPVDD CKSSFRRKDH LTRHLLQHQG KLFECTVECC NRKFSVQSNM  180
KRHVKEMHDQ CDSSHIDSPK QYVCSEAGCG KVFKYASKLK THEDSHVKLE TVEAICTEPG  240
CLKYFTNQQC LKEHIQSCHQ HIVCEICGTK QLKKNMKRHL RMHEAQPSSE RIKCDFEGCE  300
HTFATRSNLK QHVKACHLEL KPFACSISGC GMRFSFKHVR DNHEKSGCHL YTQGDFEESD  360
EQFRSRERGG RKRKLPVFET LMRKRIVPPR DTDPIIEQGA DYLSWLLSAG SEDES
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A1e-1313231741188PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D1e-1313231741188PROTEIN (TRANSCRIPTION FACTOR IIIA)
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1271277LKKNMKR
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
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019162906.10.0PREDICTED: transcription factor IIIA
SwissprotQ84MZ41e-125TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A328DSJ00.0A0A328DSJ0_9ASTE; Uncharacterized protein
STRINGXP_009592258.10.0(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA36442447
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-127transcription factor IIIA