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 PGSC0003DMP400002984
Common NameLOC102598558
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family C3H
Protein Properties Length: 703aa    MW: 77141.2 Da    PI: 7.0636
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400002984genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH24.25.7e-08116140526
                           --SGGGGTS...--TTTTT-SS-SS CS
               zf-CCCH   5 lCrffartG...tCkyGdrCkFaHg 26 
                           lC+  a++G    C+yGd+C+F+H+
  PGSC0003DMP400002984 116 LCPKVAKSGkvsACPYGDKCRFSHD 140
                           79999*******************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.0024112141IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.958116142IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-5116140IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.6E-5116142IPR000571Zinc finger, CCCH-type
PROSITE profilePS501037.216155180IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.20.20.702.2E-72346589IPR013785Aldolase-type TIM barrel
CDDcd028013.84E-90350585No hitNo description
SuperFamilySSF513958.55E-63350663No hitNo description
PfamPF012074.4E-51353620IPR001269tRNA-dihydrouridine synthase
PROSITE patternPS011360434452IPR018517tRNA-dihydrouridine synthase, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0002943Biological ProcesstRNA dihydrouridine synthesis
GO:0055114Biological Processoxidation-reduction process
GO:0017150Molecular FunctiontRNA dihydrouridine synthase activity
GO:0046872Molecular Functionmetal ion binding
GO:0050660Molecular Functionflavin adenine dinucleotide binding
Sequence ? help Back to Top
Protein Sequence    Length: 703 aa     Download sequence    Send to blast
METETLMDEL PAATATAVEH PETPLQPPSS NADDGGVSQE FRTPEELVAK SIAPVKREYL  60
RPPPSRPSTN NNNNAIVGVE NDDAAEAKGA PLLKDKKSKR QIKRERREEQ KSPLHLCPKV  120
AKSGKVSACP YGDKCRFSHD VEAFKAVKPA DIEGSCPFLV YEGPCSYGLA CRFAGTHRDD  180
VSAPTENLPG KSSELNFFSK DTQKLLWKNK MKFPKAEATL KLLGLEGNPK DKTLADNGEN  240
GQVAPKEPAT DTKTDSNVVA NDSISPSISP EDNVNGNNLA DDARPLKKAK SSVNEICSSQ  300
VSSGLSVQGG VPDGNFGVNK SEPTADTMTD SDKSLKLHPR EKKLIDFRDK LYLAPLTTVG  360
NLPFRRVCKV LGADVTCGEM AMCTNLLQGQ AAEWALLRRH SSENLFGVQI CGAYPDTVTK  420
TVELIEQECS VDFIDINMGC PIDVVVNKGG GSALLTKPMR MKSVVEAASS TVGTPVTIKV  480
RTAYFEGKNR IDSLIADMGS WGATAVTIHG RSRQQRYSKP ADWDYVYQCV RKAPKSLQVL  540
GNGDVFSYVD WNNHKTECPE LSTCMIARGA LVKPWIFTEI KEQRHWDITS GERLDILKDY  600
ARFGLQHWGS DSKGVETTRH FLLEWLGYTC RYVPVGLLDI IPQKINWRSP SYYGRDDLET  660
LMASDSAADW VRISELVLGK VPSGYSFAPK HKSNAYDRAE NG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ei9_A4e-2534759427266tRNA-dihydrouridine synthase B
6ei9_B4e-2534759427266tRNA-dihydrouridine synthase B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtCatalyzes the synthesis of dihydrouridine, a modified base found in the D-loop of most tRNAs. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400002984
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKM3992530.0KM399253.1 Solanum tuberosum FMN-linked oxidoreductases superfamily protein mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006359609.10.0PREDICTED: tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
SwissprotQ9T0J60.0DUS3L_ARATH; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBLM0ZN070.0M0ZN07_SOLTU; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRINGPGSC0003DMT4000041760.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA80391923
Publications ? help Back to Top
  1. Szponarski W,Sommerer N,Boyer JC,Rossignol M,Gibrat R
    Large-scale characterization of integral proteins from Arabidopsis vacuolar membrane by two-dimensional liquid chromatography.
    Proteomics, 2004. 4(2): p. 397-406
    [PMID:14760709]
  2. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]