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 Spipo4G0041000
Organism
Spirodela polyrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela
Family C2H2
Protein Properties Length: 370aa    MW: 42634.8 Da    PI: 9.0899
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo4G0041000genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H222.14e-076789123
                    EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                    y+C+ Cg sF+ + +L++H++ H
  Spipo4G0041000 67 YTCTECGVSFKKPAYLRQHMQGH 89
                    9*******************988 PP
2zf-C2H221.84.8e-0795119123
                     EEET..TTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                     ++Cp  dC++s++rk++L+rH+  H
  Spipo4G0041000  95 FVCPvdDCHRSYRRKDHLTRHLLQH 119
                     89*******************9887 PP
3zf-C2H219.42.9e-06124149123
                     EEET..TTTEEESSHHHHHHHHHH.T CS
         zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                     ++Cp   Cg++F+ + n++rH +  H
  Spipo4G0041000 124 FVCPvgGCGRRFTLQGNMRRHVKEfH 149
                     89********************9988 PP
4zf-C2H221.46.7e-07164188123
                     EEET..TTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                     + Cp   Cgk+F+  s Lk+H+ +H
  Spipo4G0041000 164 HICPeeGCGKVFRYLSKLKKHMDSH 188
                     68999*****************999 PP
5zf-C2H216.13.2e-05255279223
                     EET..TTTEEESSHHHHHHHHHH.T CS
         zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                     kC+   C   Fs ksnL +Hir+ H
  Spipo4G0041000 255 KCHfpGCLHAFSKKSNLDKHIRVvH 279
                     79999*****************988 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355282244IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.6212249IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.3E-86793IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.36E-1167119No hitNo description
SMARTSM003556.9E-46789IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015714.1916794IPR007087Zinc finger, C2H2
PROSITE patternPS0002806989IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.7E-1194121IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.22195122IPR007087Zinc finger, C2H2
SMARTSM003550.001695119IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028097119IPR007087Zinc finger, C2H2
SuperFamilySSF576676.15E-7105153No hitNo description
Gene3DG3DSA:3.30.160.601.7E-7122146IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.762124154IPR007087Zinc finger, C2H2
SMARTSM003554.4E-4124149IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280126149IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.4E-8160188IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.84E-5161190No hitNo description
PROSITE profilePS501579.889164188IPR007087Zinc finger, C2H2
SMARTSM003552.7E-4164188IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280166188IPR007087Zinc finger, C2H2
SMARTSM003550.88196221IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.9E-4198221IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280198221IPR007087Zinc finger, C2H2
SMARTSM003555.4224245IPR015880Zinc finger, C2H2-like
SuperFamilySSF576671.56E-6236292No hitNo description
Gene3DG3DSA:3.30.160.605.1E-8236277IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.039254279IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.385254284IPR007087Zinc finger, C2H2
PROSITE patternPS000280256279IPR007087Zinc finger, C2H2
SMARTSM0035513285311IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280287311IPR007087Zinc 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: 370 aa     Download sequence    Send to blast
SESAGGTEDV PPSPVFRDIR RYFCDFCGIC RSKKSLITAH IMAHHQEEAG CMKYDAGGGD  60
ENKHSEYTCT ECGVSFKKPA YLRQHMQGHS LERPFVCPVD DCHRSYRRKD HLTRHLLQHE  120
GKIFVCPVGG CGRRFTLQGN MRRHVKEFHN EEGCSCRDQS QQQHICPEEG CGKVFRYLSK  180
LKKHMDSHVK LDYVDVICGE PGCMKHFTNA ECLRAHVRTC HRHVQCPTCG TQQLRKNLKR  240
HMRLHESQTA AEKIKCHFPG CLHAFSKKSN LDKHIRVVHL ECRPFLCRFA GCGLKFPYKH  300
VRDNHEKSGA HTYFEGDFLV SDEQFRSRPR GGRKRKHVGP VESLLRKRIA AAPDEIGPFR  360
SATHYHLHRL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A7e-196721913158PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D7e-196721913158PROTEIN (TRANSCRIPTION FACTOR IIIA)
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1327335RPRGGRKRK
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_010251838.11e-160PREDICTED: transcription factor IIIA
RefseqXP_010251839.11e-160PREDICTED: transcription factor IIIA
RefseqXP_010251840.11e-160PREDICTED: transcription factor IIIA
RefseqXP_010251841.11e-160PREDICTED: transcription factor IIIA
RefseqXP_010931909.11e-160transcription factor IIIA
SwissprotQ84MZ41e-124TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A1D1YK821e-176A0A1D1YK82_9ARAE; Transcription factor IIIA (Fragment)
STRINGXP_010251838.11e-160(Nelumbo nucifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP23823882
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-126transcription factor IIIA