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 MDP0000692633
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 C3H
Protein Properties Length: 190aa    MW: 22280.5 Da    PI: 4.9448
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000692633genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.83.3e-0785104625
                    -SGGGGTS--TTTTT-SS-S CS
        zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                    C+f+++tG C++G rC++ H
  MDP0000692633  85 CPFHLKTGACRFGQRCSRVH 104
                    ******************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.73279107IPR000571Zinc finger, CCCH-type
PfamPF006423.4E-584104IPR000571Zinc finger, CCCH-type
PRINTSPR018483.2E-1885104IPR009145U2 auxiliary factor small subunit
PRINTSPR018483.2E-18104124IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3301.4E-8111168IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018483.2E-18140155IPR009145U2 auxiliary factor small subunit
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0089701Cellular ComponentU2AF
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 190 aa     Download sequence    Send to blast
MEVKRKKQIE EEEEEEERTR TKAREEEDEL SRNQQDSXRP TSNPLPPQSE AFSDYKSSSM  60
SAQQLIESVA QQVPHFGTEQ DKAHCPFHLK TGACRFGQRC SRVHFCPDKS STLLIKNMYN  120
GPGLAWEQDE GLEYTDEEVE RCYEEFYEDV HTEFLRFGEI INFKVPDSFF VIPKHFICFQ  180
KYKGNRLKF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A2e-1876168998Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_028959391.16e-91LOW QUALITY PROTEIN: zinc finger CCCH domain-containing protein 5-like
SwissprotQ9SY742e-71C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLA0A498HRR46e-86A0A498HRR4_MALDO; Uncharacterized protein
STRINGXP_009362161.11e-93(Pyrus x bretschneideri)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF47132433
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.14e-63C3H family protein
Publications ? help Back to Top
  1. Lorković ZJ,Wieczorek Kirk DA,Lambermon MH,Filipowicz W
    Pre-mRNA splicing in higher plants.
    Trends Plant Sci., 2000. 5(4): p. 160-7
    [PMID:10740297]
  2. Domon C,Lorković ZJ,Valcárcel J,Filipowicz W
    Multiple forms of the U2 small nuclear ribonucleoprotein auxiliary factor U2AF subunits expressed in higher plants.
    J. Biol. Chem., 1998. 273(51): p. 34603-10
    [PMID:9852132]