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 Carubv10022259m
Common NameCARUB_v10022259mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family C2H2
Protein Properties Length: 402aa    MW: 45238.8 Da    PI: 7.9259
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10022259mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.30.0012143123
                     EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                     y C++Cg s s k++ ++Hi++H
  Carubv10022259m 21 YLCQYCGISRSKKYLITSHIQSH 43
                     56********************6 PP
2zf-C2H219.92e-066789123
                     EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                     ++C+ Cg  F+ + +Lk+Hi++H
  Carubv10022259m 67 HTCQECGAEFKKPAHLKQHIQSH 89
                     79*******************99 PP
3zf-C2H214.69.2e-0595119123
                      EEET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                      + C   dC  s++rk++L+rH+ tH
  Carubv10022259m  95 FACYvdDCAASYRRKDHLNRHLLTH 119
                      6688889****************99 PP
4zf-C2H221.65.8e-07204228123
                      EEET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                      ++C+   Cgk F+  s+L++H+ +H
  Carubv10022259m 204 HVCKeiGCGKAFKYASQLQKHQDSH 228
                      79********************998 PP
5zf-C2H217.98.7e-06294319123
                      EEET..TTTEEESSHHHHHHHHHH.T CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                      +kC+   C+ +Fs  snL++H +  H
  Carubv10022259m 294 FKCEveGCSSTFSKASNLQKHVKAvH 319
                      89*******************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355182143IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.6E-46686IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015713.7556794IPR007087Zinc finger, C2H2
SMARTSM003550.00376789IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806989IPR007087Zinc finger, C2H2
SuperFamilySSF576672.17E-1080121No hitNo description
Gene3DG3DSA:3.30.160.601.4E-1287121IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.2495119IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.86895124IPR007087Zinc finger, C2H2
PROSITE patternPS00028097119IPR007087Zinc finger, C2H2
SuperFamilySSF576678.47E-5122150No hitNo description
PROSITE profilePS501579.806124154IPR007087Zinc finger, C2H2
SMARTSM003550.74124149IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280126149IPR007087Zinc finger, C2H2
SuperFamilySSF576672.56E-6199230No hitNo description
Gene3DG3DSA:3.30.160.605.7E-8199228IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.011204233IPR007087Zinc finger, C2H2
SMARTSM003550.0022204228IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280206228IPR007087Zinc finger, C2H2
SMARTSM003550.97236261IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280238261IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.5E-4238259IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM0035522264285IPR015880Zinc finger, C2H2-like
SuperFamilySSF576678.68E-9275331No hitNo description
Gene3DG3DSA:3.30.160.601.0E-7275316IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003554.8E-4294319IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.819294324IPR007087Zinc finger, C2H2
PROSITE patternPS000280296319IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.2E-4318345IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003558.1325351IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280327351IPR007087Zinc 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
MAEEANSVDV KASTKKDIRN YLCQYCGISR SKKYLITSHI QSHHQMELEE EIVDEACEVG  60
EETSSKHTCQ ECGAEFKKPA HLKQHIQSHS LERPFACYVD DCAASYRRKD HLNRHLLTHK  120
GKLFKCPMEN CKSEFSVQGN VGRHVKKYHS NDDSAKDNTG DLDKDKSCCG GGDKKNIGNG  180
DSGKDNTSNG SSPPSECSTG QKQHVCKEIG CGKAFKYASQ LQKHQDSHVK LDSVEAFCSE  240
PGCMKYFTNE ECLKAHIRSC HQHINCEICG SKHLKKNIKR HLRTHEEDST PGEFKCEVEG  300
CSSTFSKASN LQKHVKAVHK DIRPFVCGFP GCGMRFAYKH VRNNHENSGC HIYTCGDFVE  360
TDEDFTSRPR GGLKRKQVTA EMLVRKRVMP PRFDAEEHET C*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5wjq_D1e-15193547284Zinc 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
PlantRegMapCarubv10022259m
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_006301795.10.0transcription factor IIIA
SwissprotQ84MZ40.0TF3A_ARATH; Transcription factor IIIA
TrEMBLR0IDC60.0R0IDC6_9BRAS; Uncharacterized protein
STRINGXP_006301795.10.0(Capsella rubella)
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