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 XP_009768328.1
Organism
Nicotiana sylvestris
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family C3H
Protein Properties Length: 706aa    MW: 78514.8 Da    PI: 6.2274
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009768328.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.54.1e-07115139526
                     --SGGGGTS...--TTTTT-SS-SS CS
         zf-CCCH   5 lCrffartG...tCkyGdrCkFaHg 26 
                     +C+  a+tG    C+y d+C+F+H+
  XP_009768328.1 115 ICPEVAKTGkvsACPYSDKCRFSHD 139
                     5999********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF006421.2E-4115139IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010310.756115141IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.305154179IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.20.20.701.2E-72350593IPR013785Aldolase-type TIM barrel
CDDcd028011.44E-90354589No hitNo description
SuperFamilySSF513957.85E-63354667No hitNo description
PfamPF012072.0E-51357624IPR001269tRNA-dihydrouridine synthase
PROSITE patternPS011360438456IPR018517tRNA-dihydrouridine synthase, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008033Biological ProcesstRNA processing
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: 706 aa     Download sequence    Send to blast
MENETLTDSS PAATTTEHPE APVQQPSSNT DDGGVSQPFR TPEELVAKAI APVKREYLRP  60
PPSRPSNNKD SNNSTVGVEN DDAAEAKSAP ILKEKKSKRQ IKRERRQEQK SPLHICPEVA  120
KTGKVSACPY SDKCRFSHDL EAFKAEKPAD IEGSCPFLVY EGPCPYGLAC RFAGTHEDDV  180
STQTEKISRK SSELNFFNKD TQKLLWKNKM KFPKAEATLK LLGLKGHPKD KILVDKEENG  240
EVVLKEPATD TKTDSNEAAS DCSNKVEITP SISPEDDVVE NNLADDIRPL KKAKSSIDEI  300
CSSQASNGSS VQGEVLDSNC DVNKSDPTAD MVTDSDKSLK LHPREKKLID FRDKLYLAPL  360
TTVGNLPFRR VCKVLGADVT SGEMAMCTNL LQGQASEWAL LRRHSSENLF GVQICGAYPD  420
TVTKTVELIE QECSVDFIDI NMGCPIDIVV NKGAGSALLT KPMRMKSVVE AASATVDIPI  480
TIKVRTAYFE GKNRIDSLIA DIGNWGATAV TIHGRSRQQR YSKLADWDYI YQCVQRAPKS  540
LQVLGNGDVF SYLDWNKHKT DSPELSTCMI ARGALIKPWI FTEIKEQRHW DITSGERLDI  600
LKDYARFGLE HWGSDSKGVE TTRHFLLEWL SYTCRYVPVG LLEIIPQRIN WRPPSYYGRD  660
DLETLMASDS AADWIRISEM LLGKVPAGFS FAPKHKSNAY DRAENG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ei9_A8e-2835159827266tRNA-dihydrouridine synthase B
6ei9_B8e-2835159827266tRNA-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}.
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_009768328.10.0PREDICTED: tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
SwissprotQ9T0J60.0DUS3L_ARATH; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBLA0A1U7VPK10.0A0A1U7VPK1_NICSY; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRINGXP_009768328.10.0(Nicotiana sylvestris)
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]