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 Neem_10720_f_1
Organism
Azadirachta indica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family Whirly
Protein Properties Length: 642aa    MW: 70745.4 Da    PI: 8.9119
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_10720_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly190.82.2e-59241601137
          Whirly   1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrkalk 95 
                     svyk+kaa++v++v+ptf++ dsg lk+kr+G +ll++ +a++erky+Wek+q+fals+tev++l+ +++++s+effhdp++ +sn+G+vrk+l+
  Neem_10720_f_1  24 SVYKGKAAFSVDPVLPTFTKTDSGFLKVKRKGVILLTFWPAIGERKYNWEKRQNFALSPTEVGSLITMGPNDSSEFFHDPGMLSSNAGQVRKSLS 118
                     79********************************************************************************************* PP

          Whirly  96 vePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsl 137
                     ++ l+dG G+f++l+v+ns++k+ e+++vPv+ aefav++++
  Neem_10720_f_1 119 IKALADGNGYFISLNVSNSILKTSERLVVPVTAAEFAVMKTA 160
                     ****************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.101.9E-6212162IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544471.65E-5317163IPR009044ssDNA-binding transcriptional regulator
PfamPF085362.4E-5625159IPR013742Plant transcription factor
SuperFamilySSF539277.02E-25355420IPR016193Cytidine deaminase-like
Gene3DG3DSA:3.40.140.102.3E-25375427No hitNo description
PfamPF003835.6E-5385585IPR002125Cytidine and deoxycytidylate deaminases, zinc-binding
SuperFamilySSF539277.02E-25470498IPR016193Cytidine deaminase-like
PROSITE profilePS5174711.258473595IPR002125Cytidine and deoxycytidylate deaminases, zinc-binding
Gene3DG3DSA:3.40.140.102.3E-25477490No hitNo description
Gene3DG3DSA:3.40.140.102.3E-25548624No hitNo description
SuperFamilySSF539277.02E-25553624IPR016193Cytidine deaminase-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
GO:0003824Molecular Functioncatalytic activity
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 642 aa     Download sequence    Send to blast
MSQAGMSTTS QDVSAKSRVF APYSVYKGKA AFSVDPVLPT FTKTDSGFLK VKRKGVILLT  60
FWPAIGERKY NWEKRQNFAL SPTEVGSLIT MGPNDSSEFF HDPGMLSSNA GQVRKSLSIK  120
ALADGNGYFI SLNVSNSILK TSERLVVPVT AAEFAVMKTA CSLQDTKAKK AQKQVSVKKR  180
LKTSTSPRKE KVRTSSSHGL GPVDEPTATK RSREFIKGEI PPSSVQEQSS NSKMNTCQII  240
HIPNKPPFPP NQQPTVNVFA SVVEPKLANT IIRRLNQVAP LEDLRHVKRI QKKFLEGGKT  300
QLSVILCLAD ENDHHMSSLP QDIQELVNSH QLSPFIAKVC RYAALSKEEW EEQCKLWPTS  360
YHPPTYNIDG ITGFSEEDSQ SIFGFMKSAV KMAKSGDGSM VNAAIIVDPS VKHVIASACD  420
QICSCSTSTK ENSINGCSGQ REVPHSSPSK DSPVVSCLSP SHWAQQKSHT ASCYLHPLHH  480
AAMVAIESSA ARDRGLFPGV EHDRDKSNGV DNIHSASTGT PAKRQKTDFE NVENGEEMDP  540
SAEDFHPTSA RPYLCTGYDI FLVWEPCVMC AMALVHQRIR RIFYAFPNQH AGALGSIHRL  600
QGEKSLNHHY AVFRVLLREE VLKMDEIVGV RFTQNGTTAT IT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4kop_A2e-701816310155Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_B2e-701816310155Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_C2e-701816310155Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_D2e-701816310155Single-stranded DNA-binding protein WHY2, mitochondrial
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtInvolved in RNA editing. Catalyzes the specific deamination of adenosine-34 in several cytosolic tRNA species. Generates inosine at the wobble position of the anticodon loop. {ECO:0000269|PubMed:25315605}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006494250.10.0tRNA-specific adenosine deaminase TAD3 isoform X2
SwissprotF4KH861e-147TAD3_ARATH; tRNA-specific adenosine deaminase TAD3
TrEMBLV4TR270.0V4TR27_9ROSI; Uncharacterized protein
STRINGXP_006494249.10.0(Citrus sinensis)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71260.19e-72WHIRLY 2
Publications ? help Back to Top
  1. Zhou W,Karcher D,Bock R
    Identification of enzymes for adenosine-to-inosine editing and discovery of cytidine-to-uridine editing in nucleus-encoded transfer RNAs of Arabidopsis.
    Plant Physiol., 2014. 166(4): p. 1985-97
    [PMID:25315605]