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 AT5G06420.1
Common NameMHF15.6
Organism
Arabidopsis thaliana
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 C3H
Protein Properties Length: 378aa    MW: 42460.1 Da    PI: 7.1325
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G06420.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH36.96e-12236261126
                  --S---SGGGGTS--TTTTT-SS-SS CS
      zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                  y   +C+++ +tG+C yGd+CkF H+
  AT5G06420.1 236 YQPDICKDYKETGYCGYGDSCKFLHD 261
                  66789********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902291.83E-9234267IPR000571Zinc finger, CCCH-type
SMARTSM003568.4E-8235262IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.009235263IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.0E-13236266IPR000571Zinc finger, CCCH-type
PfamPF006421.2E-9236261IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.40.104.6E-13298353IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF578504.62E-13311354No hitNo description
PfamPF139204.8E-8311353No hitNo description
SMARTSM001849.9E-5312349IPR001841Zinc finger, RING-type
PROSITE profilePS5008910.571312350IPR001841Zinc finger, RING-type
CDDcd001624.65E-9312353No hitNo description
PROSITE patternPS005180327336IPR017907Zinc finger, RING-type, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0034247Biological ProcesssnoRNA splicing
GO:0045292Biological ProcessmRNA cis splicing, via spliceosome
GO:0005684Cellular ComponentU2-type spliceosomal complex
GO:0016020Cellular Componentmembrane
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000293anatomyguard cell
PO:0009025anatomyvascular leaf
PO:0025195anatomypollen tube cell
PO:0025281anatomypollen
PO:0001017developmental stageM germinated pollen stage
Sequence ? help Back to Top
Protein Sequence    Length: 378 aa     Download sequence    Send to blast
MEPFVVKENI VASASSPMKK RRIDHTESAD GSAINASNSS SIGGNDTVMN MAEFGNDNSN  60
NQESQQVCTF FKKPTKSKNI RKRTIDADEE DGDSKSESSI LQNLKKVAKP DSNLYFSSGP  120
STRTSGAPER PVFHYDSSKE IQVQNDSGAT ATLETETDFN QDARAIRERV LKKADHALKG  180
NKKKASDEKL YKGIHGYTDH KAGFRREQTI SSEKAGGSHG PLRASAHIRV SARFDYQPDI  240
CKDYKETGYC GYGDSCKFLH DRGDYKPGWQ IEKEWEEAEK VRKRNKAMGV EDDDDEADKD  300
SDEDENALPF ACFICREPFL DPVVTKCKHY FCEHCALKHH TKNKKCFVCN QPTMGIFNAA  360
HEIKKRMAEE RSKAEQGL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5z56_M2e-656637713327RING finger protein 113A
5z58_M2e-656637713327RING finger protein 113A
6ff4_t2e-656637713327RING finger protein 113A
6ff7_t2e-656637713327RING finger protein 113A
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible250736_s_at0.0
Expression AtlasAT5G06420-
AtGenExpressAT5G06420-
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G06420.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G06420
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0874350.0AY087435.1 Arabidopsis thaliana clone 3542 mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_196260.10.0Zinc finger (CCCH-type/C3HC4-type RING finger) family protein
RefseqNP_850780.10.0Zinc finger (CCCH-type/C3HC4-type RING finger) family protein
SwissprotQ9FNG60.0C3H51_ARATH; Zinc finger CCCH domain-containing protein 51
TrEMBLA0A178UJT80.0A0A178UJT8_ARATH; Uncharacterized protein
STRINGAT5G06420.20.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM110992634
Representative plantOGRP58961720
Publications ? help Back to Top
  1. Kosarev P,Mayer KF,Hardtke CS
    Evaluation and classification of RING-finger domains encoded by the Arabidopsis genome.
    Genome Biol., 2002. 3(4): p. RESEARCH0016
    [PMID:11983057]
  2. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  3. Stone SL, et al.
    Functional analysis of the RING-type ubiquitin ligase family of Arabidopsis.
    Plant Physiol., 2005. 137(1): p. 13-30
    [PMID:15644464]
  4. Mitra SK,Gantt JA,Ruby JF,Clouse SD,Goshe MB
    Membrane proteomic analysis of Arabidopsis thaliana using alternative solubilization techniques.
    J. Proteome Res., 2007. 6(5): p. 1933-50
    [PMID:17432890]
  5. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]
  6. Ascencio-Ib
    Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection.
    Plant Physiol., 2008. 148(1): p. 436-54
    [PMID:18650403]
  7. Wang Y, et al.
    Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis.
    Plant Physiol., 2008. 148(3): p. 1201-11
    [PMID:18775970]