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_015866975.1
Organism
Ziziphus jujuba
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rhamnaceae; Paliureae; Ziziphus
Family Trihelix
Protein Properties Length: 787aa    MW: 87656.5 Da    PI: 8.6921
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_015866975.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix72.57.6e-23695775186
        trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                     +W+ +e+++Lie+r e++ r++  k +++lWee+s ++ ++gf+rsp qCk+ w +l ++y++ k  ek++     +++pyf+q+e
  XP_015866975.1 695 KWKPEEIKKLIEMRGELDGRFQVVKGRMALWEEISTNLLAEGFNRSPGQCKSLWASLVQKYEESKSEEKSQ-----KSWPYFKQME 775
                     7*****************************************************************99984.....56*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.5E-6977327IPR001279Metallo-beta-lactamase
SuperFamilySSF562813.17E-5978397IPR001279Metallo-beta-lactamase
SMARTSM008495.6E-2590287IPR001279Metallo-beta-lactamase
PfamPF127061.4E-10102237IPR001279Metallo-beta-lactamase
PROSITE profilePS500908.386688752IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.607.4E-6688754IPR009057Homeodomain-like
SMARTSM007170.0024692754IPR001005SANT/Myb domain
PfamPF138372.0E-18693775No hitNo description
CDDcd122038.31E-23694759No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 787 aa     Download sequence    Send to blast
MAAFCTVSPS PYGLLWRPKL TRRSVSCSVD SPPTVIGTPK SKVPRKRRGK AEGARKSMED  60
SVKRKMEQFY EGADGPPLRV LPIGGLGEIG MNCMLVGNYD RYILIDAGVM FPDYDELGVQ  120
KIIPDTTFIR RWRHKIEAVV ITHGHEDHIG ALPWVIPALD SDTPIFASSF TMELIKKRLK  180
ENGIFVPSRL KVFRMRKKFT AGPFEIEPLR VTHSIPDCCG LVLRCADGTI LHTGDWKIDE  240
SPLDGKSFDR DALEELSKEG VTLMMSDSTN VLSPGRTTSE SSVADALLRH ISAAKGRVIT  300
TQFASNIHRL GSVKAAADLT GRKLVFVGMS LRTYLDAAWK DGKAPIDPST LEEVLQLVKP  360
QHFLPIHGEL LFLKEHELLG RSTGIRHTAV IRNGEMLGVS HLRNRRVLSN NGFTFLGKEN  420
LQLKYSDGDK AFGTSNELCV DERLRIALDG IIVVSMEVLR PETVEGVVEN SLKGKIRITT  480
RCLWLDKGKL LDALHKAAHA ALSSCPVNCP LAHMERTVSE VLRKLVRKYS GKRPEVIAIA  540
VENHAAVLSD ELSARLSGKS HVGNEASRLR KMIDERPNKN RSNRLQADEG KGNIHLESKS  600
QDFGGDAIEF QGLLSEEDTA TTSSSLDKLS FDSEESDDFW KSFIESSSPI DKVIKDKNGH  660
VPQQENIPMP EKDGDEGSEI PKPQPKSSKS VKRNKWKPEE IKKLIEMRGE LDGRFQVVKG  720
RMALWEEIST NLLAEGFNRS PGQCKSLWAS LVQKYEESKS EEKSQKSWPY FKQMENALSD  780
SEAMAAK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A5e-557835719295RIBONUCLEASE J
5a0t_B5e-557835719295RIBONUCLEASE J
5a0v_A5e-557835719295RIBONUCLEASE J
5a0v_B5e-557835719295RIBONUCLEASE J
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtEssential protein required during embryogenesis, especially in initiating and maintaining the organization of shoot apical meristems (SAMs), cotyledons, and hypocotyls (PubMed:15266054, PubMed:25871650). Involved in auxin-mediated pathways during embryogenesis (PubMed:25871650). RNase that has both endonuclease and 5'-3' exonuclease activities. Involved in RNA surveillance to prevent overaccumulation of antisense RNA (PubMed:22033332). Probably involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay (By similarity). {ECO:0000250|UniProtKB:Q72JJ7, ECO:0000269|PubMed:15266054, ECO:0000269|PubMed:22033332, ECO:0000269|PubMed:25871650}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_015866975.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. {ECO:0000269|PubMed:25871650}.
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_015866975.10.0uncharacterized protein LOC107404538
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA5C3R90.0A5C3R9_VITVI; Uncharacterized protein
STRINGXP_006477010.10.0(Citrus sinensis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF50993450
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63420.10.0Trihelix family protein
Publications ? help Back to Top
  1. Bryant N,Lloyd J,Sweeney C,Myouga F,Meinke D
    Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis.
    Plant Physiol., 2011. 155(4): p. 1678-89
    [PMID:21139083]
  2. Halpert M,Liveanu V,Glaser F,Schuster G
    The Arabidopsis chloroplast RNase J displays both exo- and robust endonucleolytic activities.
    Plant Mol. Biol., 2019. 99(1-2): p. 17-29
    [PMID:30511330]