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 MDP0000321222
Organism
Malus domestica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus
Family C2H2
Protein Properties Length: 572aa    MW: 65225.5 Da    PI: 9.3278
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000321222genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H220.71.1e-066485223
                   EETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2  2 kCpdCgksFsrksnLkrHirtH 23
                   +C+ Cg++F+ + +Lk+H+++H
  MDP0000321222 64 TCEECGTTFKKPAHLKQHLQSH 85
                   6*******************99 PP
2zf-C2H215.55.1e-0591115123
                    EEET..TTTEEESSHHHHHHHHHHT CS
        zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                    y C+  dC+ s++rk++L+rH+  H
  MDP0000321222  91 YICSvdDCHSSYRRKDHLTRHLLQH 115
                    89*******************9887 PP
3zf-C2H212.80.00037120145123
                    EEET..TTTEEESSHHHHHHHHHH.T CS
        zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                    +kCp  +C++ F  + n krH +  H
  MDP0000321222 120 FKCPveNCNREFVFQGNIKRHVNElH 145
                    89*******************99888 PP
4zf-C2H214.69.9e-05160184123
                    EEET..TTTEEESSHHHHHHHHHHT CS
        zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                    ++C+   Cgk F+  s L++H  +H
  MDP0000321222 160 HVCQeiGCGKEFRYASRLRKHEESH 184
                    799******************9988 PP
5zf-C2H216.62.1e-05251275223
                    EET..TTTEEESSHHHHHHHHHH.T CS
        zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                    kC    C ++F++ksnL +H +  H
  MDP0000321222 251 KCDykGCLRTFTTKSNLXKHVKAvH 275
                    688889**************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355471941IPR015880Zinc finger, C2H2-like
SMARTSM003550.00986385IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.6096390IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.7E-76490IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS0002806585IPR007087Zinc finger, C2H2
SuperFamilySSF576671.17E-971123No hitNo description
SMARTSM003550.01491115IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.603.4E-991117IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.70291120IPR007087Zinc finger, C2H2
PROSITE patternPS00028093115IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.2E-4118145IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.82E-5118145No hitNo description
SMARTSM003550.064120145IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.762120150IPR007087Zinc finger, C2H2
PROSITE patternPS000280122145IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.7E-6155184IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.658160189IPR007087Zinc finger, C2H2
SMARTSM003550.011160184IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280162184IPR007087Zinc finger, C2H2
SMARTSM0035514192217IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280194217IPR007087Zinc finger, C2H2
SMARTSM0035516220241IPR015880Zinc finger, C2H2-like
SuperFamilySSF576671.77E-7232288No hitNo description
SMARTSM003550.0014250275IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.466250280IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.5E-6251275IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280252275IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.1E-4276304IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003555.8281307IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280283307IPR007087Zinc finger, C2H2
CDDcd004323.56E-17466569No hitNo description
SuperFamilySSF531379.42E-18473569No hitNo description
PfamPF008612.1E-9474571IPR005484Ribosomal protein L18
Gene3DG3DSA:3.30.420.1005.0E-16476571No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006412Biological Processtranslation
GO:0005730Cellular Componentnucleolus
GO:0005840Cellular Componentribosome
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0003735Molecular Functionstructural constituent of ribosome
GO:0008097Molecular Function5S rRNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0080084Molecular Function5S rDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 572 aa     Download sequence    Send to blast
MDKGAGEKEG PIVRDIRRHY CDYCGICRSK KSLIASHILS HHKEEMEMAD GDGGGXVGEE  60
NSNTCEECGT TFKKPAHLKQ HLQSHSLERP YICSVDDCHS SYRRKDHLTR HLLQHQGKLF  120
KCPVENCNRE FVFQGNIKRH VNELHIEDCP SADGGXQKQH VCQEIGCGKE FRYASRLRKH  180
EESHVKLDTV EAFCFEPGCM KHFTNDQCLK VHIQSCHQHT TCEICGAKQL RQNMKRHLLT  240
HEXRXSIERI KCDYKGCLRT FTTKSNLXKH VKAVHLEHKP FVCSFSGCGM RFAYKHVRDN  300
HEKTGCHVYT HGDFEEADEQ FRSRPRGGRK RQCPDIPMLV RKREILMVSG SVHRQXARVF  360
RFCXFGKVVX ITLFELACXR ECREMVTIIS CSAAPPSSVC GSLSLSSSGL LPTRSTQLSW  420
VSSFPLINIS IADPPXPALS RNSVVRAAWT RRSRGEAAKK PNRKSWKQKT DMYMRPFLLN  480
VFFSKKFIHA KVMHRGTSKV ISVATTNAKD LRSNLPSLTD HNACRVIGRL IAERSKEADV  540
YALSYEARKG ERIEGKLGIV LDTIKENGIM FV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A7e-146721219155PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D7e-146721219155PROTEIN (TRANSCRIPTION FACTOR IIIA)
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Mdo.234810.0stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Both isoforms 1 and 2 transcripts are expressed in seedlings and both TFIIIA and TFIIIA-C are present at similar ratios in 10-day-old seedlings (at protein level). In correlation with the reorganization of 5S rDNA chromatin to a mature state, full-length isoform 1 protein TFIIIA with transcriptional activity accumulates and permits de novo transcription of 5S rRNA. Isoforms 1 and 2 transcripts accumulate in various tissues of the reproductive phase, including flowers and siliques, but only isoform 2 is present in mature seeds. In flowers, both TFIIIA and TFIIIA-C are present at similar ratios (at protein level). Very low amounts of TFIIIA are found in extracts from fresh siliques compared to TFIIIA-C. The amount of full-length TFIIIA protein progressively increases from fresh siliques to seeds concomitant with lower proportions of the shorter TFIIIA-C protein (at protein level) thus leading to 5S rRNA accumulation in the seed. {ECO:0000269|PubMed:22353599}.
UniprotTISSUE SPECIFICITY: Expressed in seedlings, flowers, siliques and seeds. {ECO:0000269|PubMed:22353599}.
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_028949414.10.0transcription factor IIIA-like isoform X1
SwissprotQ84MZ41e-136TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A498HWX80.0A0A498HWX8_MALDO; Uncharacterized protein
STRINGXP_008339227.10.0(Malus domestica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF30693370
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-133transcription factor IIIA