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 30131.m007147
Common NameLOC8284388, RCOM_1451400
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family C3H
Protein Properties Length: 686aa    MW: 76263.1 Da    PI: 6.6177
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
30131.m007147genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH201.2e-0693117526
                    --SGGGGTS...--TTTTT-SS-SS CS
        zf-CCCH   5 lCrffartG...tCkyGdrCkFaHg 26 
                    lC+  a+t     C+yGd+C+F+H+
  30131.m007147  93 LCPELAKTEdvnSCRYGDKCRFSHD 117
                    5666666666668***********7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.88788119IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.3E-493119IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.042132158IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.20.20.701.1E-73330573IPR013785Aldolase-type TIM barrel
CDDcd028011.83E-92334569No hitNo description
SuperFamilySSF513951.89E-63334647No hitNo description
PfamPF012071.5E-51337604IPR001269tRNA-dihydrouridine synthase
PROSITE patternPS011360418436IPR018517tRNA-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: 686 aa     Download sequence    Send to blast
MADSATELAE QPPLCKTNGT NNPTPEQLVA KAIAPVKAEF LRPPPPSRTN QNDTVIPNSD  60
AKAASQSIVS KEKKSKRQLK RERREEKKSA LNLCPELAKT EDVNSCRYGD KCRFSHDLEA  120
FKAQKPDDIE GKCPFINGEG KACPYGLACR FYSTHENGVK GDASNTRKQS SEVNGLNKDV  180
QKLLWKNRFK FPKADAILKS LGLMGPSNSR VKRQNDDEVD NASVNDSHAA SENGCGKLAT  240
DAADKLECPS EVLTEDNADA VTDEIRPLKK AKSDVDEKCC SGEEANGASV PEKDSEDSFK  300
ETESDAVNNG ALTEPDGSLK THPREKKLID FKGKLYLAPL TTVGNLPFRR LCKLLGADIT  360
CGEMAMCTNL LQGQASEWAL LRRHSSEDLF GVQICGAYSD TVARTVELID QECTVDFIDI  420
NMGCPIDIVV SKGAGSCLLT KPMRMKSIIH AASSTVDTPI TVKVRTGYFE GKNRIDSLIA  480
DISNWGTNAV TIHGRSRQQR YSKLADWEYI YHCAKKAPES FQVLGNGDIF SYTDWNKHKS  540
DCPELSSCMI ARGALIKPWL FTEIKEQRHW DIRSGERLDI LKDYVHFGLE HWGSDTKGIE  600
TTRHFLLEWL SYTCRYIPVG LLDVIPQRIN WRPPSYYGRD DLETLMASDS AADWIRISEM  660
LLGKVPEGFT FAPKHKSNAY DRAENG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ei9_A2e-2731556516257tRNA-dihydrouridine synthase B
6ei9_B2e-2731556516257tRNA-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
PlantRegMap30131.m007147
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKM3992590.0KM399259.1 Ricinus communis FMN-linked oxidoreductases superfamily protein mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002513011.10.0tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
SwissprotQ9T0J60.0DUS3L_ARATH; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBLB9RG590.0B9RG59_RICCO; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRINGXP_002513011.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF108891212
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. 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]