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 MDP0000149829
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: 314aa    MW: 36064.9 Da    PI: 5.4635
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000149829genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.96.5e-07169188625
                    -SGGGGTS--TTTTT-SS-S CS
        zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                    C+f+++tG C++G rC++ H
  MDP0000149829 169 CPFHLKTGACRFGQRCSRVH 188
                    ******************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.732163191IPR000571Zinc finger, CCCH-type
PfamPF006426.7E-5168188IPR000571Zinc finger, CCCH-type
PRINTSPR018483.0E-25169188IPR009145U2 auxiliary factor small subunit
PRINTSPR018483.0E-25188208IPR009145U2 auxiliary factor small subunit
PROSITE profilePS501029.831195289IPR000504RNA recognition motif domain
Gene3DG3DSA:3.30.70.3302.9E-24195288IPR012677Nucleotide-binding alpha-beta plait domain
CDDcd125401.36E-47196287No hitNo description
PRINTSPR018483.0E-25224239IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549284.84E-14227288IPR012677Nucleotide-binding alpha-beta plait domain
PfamPF000761.9E-4232288IPR000504RNA recognition motif domain
PRINTSPR018483.0E-25252274IPR009145U2 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: 314 aa     Download sequence    Send to blast
MEVKRKKQIE EEEEEEERTR TKAREEEDEL SRNQQLFSEG SIICMPFCGV VILLYGLQDA  60
SVVSASAIFD GVRHIHCLLE VENENDXGPA EIIWQGNXII LKKKTVKIPK KNRDQETRKD  120
SXRPTSNPLP PQSEAFSDYK SSSMSAQQLI ESVAQQVPHF GTEQDKAHCP FHLKTGACRF  180
GQRCSRVHFC PDKSSTLLIK NMYNGPGLAW EQDEGLEYTD EEVERCYEEF YEDVHTEFLR  240
FGEIINFKVC RNGAFHLRGN VYIHYKSMDS AVVAYQSVNG RYFAGKQMEG CHMRGIYEVE  300
VQGIGSFFIS RCVF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A3e-271602869132Splicing 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_028959391.11e-152LOW QUALITY PROTEIN: zinc finger CCCH domain-containing protein 5-like
SwissprotQ9SY741e-107C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLA0A251RK361e-131A0A251RK36_PRUPE; Uncharacterized protein
TrEMBLM5XNZ21e-131M5XNZ2_PRUPE; Uncharacterized protein
STRINGXP_008367408.11e-154(Malus domestica)
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
AT1G10320.11e-88C3H 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]