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_009611085.1
Organism
Nicotiana tomentosiformis
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: 705aa    MW: 78398.5 Da    PI: 6.2698
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009611085.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.54.1e-07114138526
                     --SGGGGTS...--TTTTT-SS-SS CS
         zf-CCCH   5 lCrffartG...tCkyGdrCkFaHg 26 
                     +C+  a+tG    C+y d+C+F+H+
  XP_009611085.1 114 ICPEVAKTGkvsACPYSDKCRFSHD 138
                     5999********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF006421.2E-4114138IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010310.756114140IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.305153178IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.20.20.705.5E-73349592IPR013785Aldolase-type TIM barrel
SuperFamilySSF513954.5E-63353666No hitNo description
CDDcd028011.23E-90353588No hitNo description
PfamPF012075.0E-52356623IPR001269tRNA-dihydrouridine synthase
PROSITE patternPS011360437455IPR018517tRNA-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: 705 aa     Download sequence    Send to blast
MENQALTDSS PAATATEQPE APVQQPSSNT DDGGVNQPFR TPEELVSKAI APVKREYLRP  60
PPSRPSNNNN NNGTVGVEND DAAEAKSAPI LKEKKSKRQI KRERRQEQKS PLHICPEVAK  120
TGKVSACPYS DKCRFSHDLE AFKAEKPADI EGSCPFLVYE GPCPYGLACR FAGTHEDDVS  180
AQTEKISRKS FELNFFNKDT QKLLWKNKMK FPKAEATLKL LGLKGHPKNK ILVDKEENDE  240
VVPKEPATDT KTDSNEAASD CSNKVEITPS ISPEDDADEN NLADDIRPLK KAKSSIDEIC  300
SSQVSNGSSV QGEVLDSNCD VNKSEPTADT VTDSDKSLKL HPREKKLIDF RDKLYLAPLT  360
TVGNLPFRRV CKVLGADVTS GEMAMCTNLL QGQASEWALL RRHSSENLFG VQICGAYPDT  420
VTKTVELIEQ ECTVDFIDIN MGCPIDIVVN KGAGSALLTK PMRMKSVVEA ASATVGIPVT  480
IKVRTAYFEG KNRIDSLIAD IGNWGATAVT IHGRSRQQRY SKLADWDYIY QCVQRAPKSL  540
QVLGNGDVFS YLDWNKHKTD SPELSTCMIA RGALIKPWIF TEIKEQRHWD ITSGERLDIL  600
KDYARFGLEH WGSDSKGVET TRHFLLEWLS YTCRYVPVGL LDIIPQRINW RPPSYYGRDD  660
LETLMASDSA ADWIRISEML LGKVPVGFSF SPKHKSNAYD RAENG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ei9_A7e-2735059727266tRNA-dihydrouridine synthase B
6ei9_B7e-2735059727266tRNA-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_009611085.10.0PREDICTED: 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_009611085.10.0(Nicotiana tomentosiformis)
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]