PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID SapurV1A.0841s0060.1.p
Organism
Salix purpurea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Salix
Family Trihelix
Protein Properties Length: 918aa    MW: 101332 Da    PI: 8.5482
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
SapurV1A.0841s0060.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix67.52.8e-21825905186
                trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                             +W+ +ev+ Li++r e+++r++  + +++lWee+s + ++ g++rsp qCk+ w +l ++y++ k+g+k+     ++ +pyf++++
  SapurV1A.0841s0060.1.p 825 KWKPEEVKSLIKMRGELHSRFQVVRGRMALWEEISTNFMADGINRSPGQCKSLWTSLVQKYEESKNGKKG-----QKAWPYFEDMD 905
                             7******************************************************************998.....467*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.102.1E-70107357IPR001279Metallo-beta-lactamase
SuperFamilySSF562815.39E-73108522IPR001279Metallo-beta-lactamase
SMARTSM008495.2E-26120317IPR001279Metallo-beta-lactamase
PfamPF127066.2E-12132267IPR001279Metallo-beta-lactamase
PfamPF075211.1E-5465494IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500908.153818882IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.603.7E-5819884IPR009057Homeodomain-like
PfamPF138371.2E-18823907No hitNo description
CDDcd122036.15E-21824889No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009658Biological Processchloroplast organization
GO:0009942Biological Processlongitudinal axis specification
GO:0060918Biological Processauxin transport
GO:0009507Cellular Componentchloroplast
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 918 aa     Download sequence    Send to blast
MQLGFSGGFS LYCTSSHKPL KKTSPNMAAA FSVLSSCPYT FFFRPSSTKF CVSCSVGSPT  60
TTTTIGSRGT KAPPRKRTGR MEGTGKSMED SVKRKMEQFY EGSDGPPLRI IPIGGLGEIG  120
MNCMLVGNYD RYILIDAGVM FPDYDELGVQ KIIPDTTFIR RWKHKIEAVI ITHGHEDHIG  180
ALPWVIPALD HHTPIYASSF TMELIKKRLK ENGIIVPSRL KVFKTKRKFT AGPFEIEPIR  240
VTHSIPDCCG LVLRCADGTI LHTGDWKIDE SPLDGKAFDR ETLEELSKEG VTLMMSDSTN  300
VLSPGRTTSE SVVADALLRR ISAAKGRIIT TQFASNIHRL GSVKAAADLT GRKLVFVGMS  360
LRTYLEAAWK DGKAPIDPST LVKVEDIDSY APKDLLIVTT GSQAEPRAAL NLASYGSSYA  420
FKLNKEDVIL YSAKVIPGNE SRVMKMMNRI SEIGSTIVMG KNELLHTSGH GYRGELEEVL  480
KIVKPQHFLP IHGELLFLKE HELLGKSTGI HHTAVIKNGE MLGVSHLRNR RVLSNGFVSL  540
GKENLQLMYS DGDKAFGTST ELCIDERLKI ATDGIVVVSM EILRPQNLDG LVQKSLKGKI  600
KITTRCLWLD KGKLLDALHK AAHAALSSCP VNCPLTHMER TVSEMLRKMV RKYSGKRPEV  660
IAIAVENPAA VLSDELNARL SGNSHVGFGT SALRKIVDGH PKGNRVDRKQ PDGNGYAHLE  720
KTLPQNLEVD GIEFERELPE EEGMSSSPNL AEGHSSDSED QDDFQKSFVP SSSQVNELVK  780
SDESLVPPGE QMNKLKEDGV DSSDDGLLEN QNSSLKRSKS VKRNKWKPEE VKSLIKMRGE  840
LHSRFQVVRG RMALWEEIST NFMADGINRS PGQCKSLWTS LVQKYEESKN GKKGQKAWPY  900
FEDMDNILSD SETVAAN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A6e-8510866619560RIBONUCLEASE J
5a0t_B6e-8510866619560RIBONUCLEASE J
5a0v_A6e-8510866619560RIBONUCLEASE J
5a0v_B6e-8510866619560RIBONUCLEASE 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
PlantRegMapSapurV1A.0841s0060.1.p
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_002318122.20.0uncharacterized protein LOC7454544 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLB9I3P40.0B9I3P4_POPTR; Uncharacterized protein
STRINGPOPTR_0012s09780.10.0(Populus trichocarpa)
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]