PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Araha.0408s0004.1.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C2H2
Protein Properties Length: 414aa    MW: 46906.4 Da    PI: 7.5848
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.0408s0004.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.30.00113557123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         y C++Cg s s k++ ++Hi++H
  Araha.0408s0004.1.p 35 YLCQYCGISRSKKYLITSHIQSH 57
                         56********************6 PP
2zf-C2H220.11.7e-0681103123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          ++C+ Cg  F+ + +Lk+H+++H
  Araha.0408s0004.1.p  81 HTCHECGAEFKKPAHLKQHMQSH 103
                          79*******************99 PP
3zf-C2H2163.5e-05109133123
                          EEET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                          + C   dC +s++rk++L+rH+ tH
  Araha.0408s0004.1.p 109 FACYvdDCATSYRRKDHLNRHLLTH 133
                          668888*****************99 PP
4zf-C2H222.23.7e-07217240223
                          EET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   2 kCp..dCgksFsrksnLkrHirtH 23 
                          +C+   Cgk F+ +s+L++H+ +H
  Araha.0408s0004.1.p 217 VCKeiGCGKAFKYPSQLQKHQDSH 240
                          79999****************998 PP
5zf-C2H219.62.4e-06306331123
                          EEET..TTTEEESSHHHHHHHHHH.T CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                          +kC+   C+ +Fs  snL++H+r  H
  Araha.0408s0004.1.p 306 FKCEveGCSSTFSKASNLQKHLRAvH 331
                          89*********************888 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355183557IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.85881108IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.3E-481100IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.004481103IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028083103IPR007087Zinc finger, C2H2
SuperFamilySSF576672.23E-1094135No hitNo description
Gene3DG3DSA:3.30.160.601.1E-12101135IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.889109138IPR007087Zinc finger, C2H2
SMARTSM003550.34109133IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280111133IPR007087Zinc finger, C2H2
PROSITE profilePS501579.307138168IPR007087Zinc finger, C2H2
SMARTSM003550.3138163IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280140163IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.2E-6211240IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.82E-5211242No hitNo description
PROSITE profilePS5015710.72216245IPR007087Zinc finger, C2H2
SMARTSM003550.0028216240IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280218240IPR007087Zinc finger, C2H2
SMARTSM003550.97248273IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.608.9E-4250271IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280250273IPR007087Zinc finger, C2H2
SMARTSM0035522276297IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.3E-8287328IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.33E-9287344No hitNo description
PROSITE profilePS5015713.401306336IPR007087Zinc finger, C2H2
SMARTSM003553.2E-4306331IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280308331IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.6E-5330357IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003558.1337363IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280339363IPR007087Zinc 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: 414 aa     Download sequence    Send to blast
MEEINPSSCV DNQRDMAEEA KKDLKTSAKK DIRNYLCQYC GISRSKKYLI TSHIQSHHQM  60
ELEEEKDDET CEVEEESSSK HTCHECGAEF KKPAHLKQHM QSHSLERPFA CYVDDCATSY  120
RRKDHLNRHL LTHKGKLFKC PKENCKSEFS VQGNVSRHVK KCHSSGDSDK DTTGKGDSDK  180
EKSGDKENTG NGDSGKENTG NGDSQPSECS TGQKKLVCKE IGCGKAFKYP SQLQKHQDSH  240
VKLDSVEAFC SEPGCMKYFT NEECLKAHIR SCHQHINCDI CGSKHLKKNI KRHLRTHDED  300
SSPGEFKCEV EGCSSTFSKA SNLQKHLRAV HEDLRPFVCG FPGCGMRFAY KHVRNNHENS  360
GCHVYTCGDF VETDEDFTSR PRGGLKRKQV TAEMLVRKRV MPPRFDSEEH ETC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5wjq_D2e-13333577275Zinc 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
PlantRegMapAraha.0408s0004.1.p
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_020891257.10.0transcription factor IIIA
SwissprotQ84MZ40.0TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A1P8AV270.0A0A1P8AV27_ARATH; Transcription factor IIIA
STRINGBostr.10273s0148.1.p0.0(Boechera stricta)
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