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 Rsa1.0_00060.1_g00037.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family C2H2
Protein Properties Length: 402aa    MW: 46002.6 Da    PI: 7.5175
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00060.1_g00037.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2110.00143355123
                             EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                             y C++Cg s s k++ ++Hi +H
  Rsa1.0_00060.1_g00037.1 33 YLCQYCGISRSKKYLITSHIESH 55
                             56*******************96 PP
2zf-C2H220.21.6e-0681103123
                              EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                              ++C+ Cg  F+ + +Lk+H+++H
  Rsa1.0_00060.1_g00037.1  81 HTCQECGAEFKKPAHLKQHMQSH 103
                              79*******************99 PP
3zf-C2H217.21.4e-05127151123
                              EEET..TTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                              + C   dC+ s++rk++L+rH+ tH
  Rsa1.0_00060.1_g00037.1 127 FACYvdDCTASYRRKDHLNRHLLTH 151
                              678888*****************99 PP
4zf-C2H219.91.9e-06205228223
                              EET..TTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   2 kCp..dCgksFsrksnLkrHirtH 23 
                              +C+   Cgk F+ +s+L++H  +H
  Rsa1.0_00060.1_g00037.1 205 VCKevGCGKAFKYPSQLQKHEDSH 228
                              79999***************9888 PP
5zf-C2H220.21.6e-06295320123
                              EEET..TTTEEESSHHHHHHHHHH.T CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                              +kC+   C+ +Fs +snL++H++  H
  Rsa1.0_00060.1_g00037.1 295 FKCEveGCSSTFSKPSNLQKHLKAvH 320
                              89********************9877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.47E-631103No hitNo description
SMARTSM00355263355IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.609.7E-679104IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.001581103IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.98881108IPR007087Zinc finger, C2H2
PROSITE patternPS00028083103IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.6E-9120153IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.23E-6123153No hitNo description
PROSITE profilePS501579.66127156IPR007087Zinc finger, C2H2
SMARTSM003550.14127151IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280129151IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.8E-4154182IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.28E-5154182No hitNo description
PROSITE profilePS501579.91156186IPR007087Zinc finger, C2H2
SMARTSM003550.62156181IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280158181IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.605.4E-6199228IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576679.1E-5200229No hitNo description
PROSITE profilePS5015710.471204233IPR007087Zinc finger, C2H2
SMARTSM003550.0055204228IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280206228IPR007087Zinc finger, C2H2
SMARTSM003552.2236261IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280238261IPR007087Zinc finger, C2H2
SMARTSM0035525264285IPR015880Zinc finger, C2H2-like
SuperFamilySSF576676.86E-9275333No hitNo description
SMARTSM003553.6E-4295320IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.608.5E-8295320IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.84295325IPR007087Zinc finger, C2H2
PROSITE patternPS000280297320IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.9E-5321347IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003554.9326352IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280328352IPR007087Zinc 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: 402 aa     Download sequence    Send to blast
MNPSPCVDTQ REMSEEEANV DVNPTKTKDI RNYLCQYCGI SRSKKYLITS HIESHHKLEV  60
EEERNEEACE DDEEEISGKK HTCQECGAEF KKPAHLKQHM QSHSLEYQAG RPPEKLPASK  120
PPSRRPFACY VDDCTASYRR KDHLNRHLLT HKGKLFKCPV ENCKSEFSVH GNISKHVKKF  180
HTDSDSNKDE DSQPTESSSG QKKLVCKEVG CGKAFKYPSQ LQKHEDSHVK LDSVEAFCSE  240
IGCMKYFTNE ECLKAHIRSC HQHVNCEICG SKHLKKNIKR HLRTHDEDSS SPGEFKCEVE  300
GCSSTFSKPS NLQKHLKAVH EDIRPFVCGF PGCGMRFAYK HVRNNHENSG SHIYTCGDFV  360
EADEDFTSRP RGGLKRKQVT AEMLVRKRVM PPQFDSEEHE TC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5wjq_D1e-12333559284Zinc finger protein 568
Search in ModeBase
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
PlantRegMapRsa1.0_00060.1_g00037.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ6304780.0AJ630478.1 Arabidopsis thaliana mRNA for hypothetical protein, clone At1g72050D.
GenBankAY0542250.0AY054225.1 Arabidopsis thaliana At1g72050/F28P5_6 mRNA, complete cds.
GenBankAY0660420.0AY066042.1 Arabidopsis thaliana At1g72050/F28P5_6 mRNA, complete cds.
GenBankAY1866100.0AY186610.1 Arabidopsis thaliana transcription factor IIIA (TFIIIA) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018446244.10.0PREDICTED: transcription factor IIIA-like
SwissprotQ84MZ40.0TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A3P6BJ380.0A0A3P6BJ38_BRACM; Uncharacterized protein (Fragment)
STRINGBo6g092790.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM47142852
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.20.0transcription factor IIIA