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 Solyc01g110490.2.1
Common NameLOC101268622
Organism
Solanum lycopersicum
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; Lycopersicon
Family C3H
Protein Properties Length: 703aa    MW: 77361.6 Da    PI: 7.2007
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc01g110490.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.32e-06117140626
                         -SGGGGTS...--TTTTT-SS-SS CS
             zf-CCCH   6 CrffartG...tCkyGdrCkFaHg 26 
                         C+  a++     C+yGd+C+F+H+
  Solyc01g110490.2.1 117 CPVVAKSRkvsACSYGDKCRFSHD 140
                         666666666668***********7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010310.662116142IPR000571Zinc finger, CCCH-type
PROSITE profilePS501037.291155180IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.20.20.701.4E-71346589IPR013785Aldolase-type TIM barrel
SuperFamilySSF513951.34E-62350663No hitNo description
CDDcd028013.72E-90350585No hitNo description
PfamPF012074.8E-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:0005829Cellular Componentcytosol
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
METETLVDEL PVATATAVAQ PETPLQPTSS NAADGGVSEE FLTPEELVAK SKAPVKREYL  60
RPPPSRPSTN NNNNTTVGVE NDDAAEAKRA PLLKDKKSKR QIKRERREEQ KSPLHLCPVV  120
AKSRKVSACS YGDKCRFSHD VEAFKAVKPA DIEGSCPFLD YEGPCPYGLA CRFAGTHRDN  180
VSAPSENLPG KSSELNFFSK DTQKLLWKNK MKFPKAEATL KLLGLKGNPK DKTLADNVEN  240
GQVTPKEPAT DTKTDSNVVA NDSVSPSISP EDDVDGNNLA DDARPLKKAK SSVSEICPSQ  300
VSSGLSVQGG VPDDNFGVNK SEPTADTMTD SDKSLKLHPR EKKLIDFRDK LYLAPLTTVG  360
NLPFRRVCKV LGADVTCGEM AMCTNLLQGQ AAEWALLRRH SSENLFGVQI CGAFPDTITK  420
TVELIEQECS VDFIDINMGC PIDVVVNKGA GSALLTKPMR MKSVVEAASS TVSTPVTIKV  480
RTAYFEGKNR IDSLIADMGS WGATAVTIHG RSRQQRYSKP ADWDYVYQCA RKAPKSLQVL  540
GNGDVFSYVD WNNHKIECPE LSTCMIARGA LVKPWIFTEI KEQRHWDITS GERLDILKDY  600
ARFGLQHWGS DSKGVDTTRH FLLEWLSYTC RYIPVGLLDI IPQKINWRSP SYYGRDELET  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_A5e-2634759427266tRNA-dihydrouridine synthase B
6ei9_B5e-2634759427266tRNA-dihydrouridine synthase B
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.134310.0callus| fruit| leaf
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
PlantRegMapSolyc01g110490.2.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2394470.0Solanum lycopersicum strain Heinz 1706 chromosome 1 clone hba-128j14 map 1, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004230876.10.0tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
SwissprotQ9T0J60.0DUS3L_ARATH; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBLA0A3Q7FEA40.0A0A3Q7FEA4_SOLLC; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRINGSolyc01g110490.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA80391923
Representative plantOGRP57511213
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. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  3. Zeng L, et al.
    Resolution of deep angiosperm phylogeny using conserved nuclear genes and estimates of early divergence times.
    Nat Commun, 2014. 5: p. 4956
    [PMID:25249442]