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 evm_27.model.AmTr_v1.0_scaffold00185.19
Common NameAMTR_s00185p00047700
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family C3H
Protein Properties Length: 622aa    MW: 68639.3 Da    PI: 7.8685
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00185.19genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH17.48e-061982101426
                                              --TTTTT-SS-SS CS
                                  zf-CCCH  14 tCkyGdrCkFaHg 26 
                                               C+yG++C+F+H+
  evm_27.model.AmTr_v1.0_scaffold00185.19 198 ACSYGGNCRFSHD 210
                                              8***********7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010310.465186212IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.20.20.703.8E-53427612IPR013785Aldolase-type TIM barrel
CDDcd028017.09E-67431612No hitNo description
SuperFamilySSF513952.01E-41431612No hitNo description
PfamPF012073.6E-37434611IPR001269tRNA-dihydrouridine synthase
PROSITE patternPS011360515533IPR018517tRNA-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: 622 aa     Download sequence    Send to blast
MDYDFPVVPW ITLNFFSRAH CLKLTCIQRT KPKTLGKAPA VTHGENGNPR KISIGLNYRE  60
YPVMDGAVPL SGGDGGAIEA LKESVPFSGG DGGAIDALEE AISSNVEAEA QVSSKPNELL  120
SPEELVAKSV APVKKEYILP APLSRPCSNV KASEKLCNSG LLLTEKKSKR QLKRERREKQ  180
KSVLHVCPEV ARVGNIKACS YGGNCRFSHD LDAFLAQKPE DLPGTCPFMC VEEPCPYGMA  240
CRFSGTHKHG ISAKKKADRN KLSEMNGLSK ELQKLLWKKN KENFTRADAQ LKNLGFMIKG  300
NAKVRKTDEN GAEDQEDMAN RSNDQEKQDN CAIMRPSCND ISCFSSPQME DDAIKTEDTQ  360
PLKKSKIPID DTPCSGQMHN DHMLPETNEE QTITKSENEN VLRSEDSRVL EVDADLKVNA  420
REKKLIDFKG KLYLAPLTTA GYLPFRRVCK NLGADITCGE MAMCTNLLQG QASEWALLRR  480
HSSEDLFGVQ LCGAYPDTGA RTIELVDREC TVDFIDINMG CPIDIVVNKG AGSSLLTKPM  540
KMKNIIEAAS GTVDKTITVK VRTGYLEGRN RIDSLIADIG KWGANALTIH GRSRQQRYSK  600
LADWAYIYQC ARKAQDGLQE H*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ei9_A1e-1642861327211tRNA-dihydrouridine synthase B
6ei9_B1e-1642861327211tRNA-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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020528213.10.0tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
SwissprotQ7XT071e-176DUS3L_ORYSJ; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBLU5CZ940.0U5CZ94_AMBTC; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRINGERN144570.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP57511213
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]