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 102611
Common NameSELMODRAFT_102611
Organism
Selaginella moellendorffii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Lycopodiidae; Selaginellales; Selaginellaceae; Selaginella
Family Trihelix
Protein Properties Length: 830aa    MW: 93488.8 Da    PI: 9.151
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
102611genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix735.2e-23739820186
  trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
               rW+ + +++Li++r+ m++++r++klk plW+e+++k++e+g+e +  qCk  w+ l kry++i e +++    s +++p+fd ++
    102611 739 RWKPEATQVLIRLRTGMDDKFREAKLKTPLWKEIASKLAEHGYEHTHGQCKAMWSTLVKRYRNIIEDDGS----SNKNWPFFDGMH 820
               8*******************************************************************98....4678*****998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.1E-6633283IPR001279Metallo-beta-lactamase
SuperFamilySSF562811.28E-7234448IPR001279Metallo-beta-lactamase
SMARTSM008497.5E-2246243IPR001279Metallo-beta-lactamase
PfamPF127064.8E-1187193IPR001279Metallo-beta-lactamase
PfamPF075214.7E-10391436IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE patternPS012920392420IPR001587Ribonuclease J, conserved site
PROSITE profilePS500906.62737796IPR017877Myb-like domain
PfamPF138378.2E-19738822No hitNo description
CDDcd122031.54E-24738802No 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
Sequence ? help Back to Top
Protein Sequence    Length: 830 aa     Download sequence    Send to blast
QSRYGILEGA GHSKDDAVQR TMRKFYEGRN GPPLRILPIG GLGEIGMNCM LVGHYDRYIM  60
IDAGLMFPDY EDFGVVKVLP DTTFISRWKH KIEAVIITHG HEDHIGALPW VIPALDPQTR  120
IYSTSFTLEL IKRRLKDYNF PFEHRCHTFT MRNPFQAGPF KAEAIRVTHS IPDCCGLILR  180
CQDGTIFHSG DWKIDENPLD GKIFDRNTLE ELGKEGVTLM MSDSTNVLSP GRTISETDVR  240
KSLMQYVTEA KSRVISTQFA SNIHRLGSMK AAADASGRKL VFIGTALKTY IDAAWKDGQA  300
PFDPSILVKA EDMGAYSPKD LLIVTTGSQG ETRSALNLAS FGSSRSLKLS KDDVILYSAK  360
MIPGNETRVM KMLNRISETG PHIITGKDKL LHTSGHAYRD ELQELLRLIR PQHFLPVHGE  420
YTFLKEHEQL GRASGIQHTK VIRNGEMLGV SPLRNRRVLS SGFAALGKED LQLMYNDGEK  480
AFGTASDLRV DERKHIAFDG IIIVRYEVYD DNYASRLDGS EYGLRARIRI TTRCLWLDQG  540
KLTEALHRAA NAAVGSCKQD ADLQTVERTV ATVLRKVAQK YNNKRPEVVA IATERAVAPK  600
DKLIQKRLVV DAAAQLKVLV RTNAVNTRVY EKEKRQQQHA EKDNERRLSV EETETEEERV  660
RKAIAEKVLR EMKNARTQKA ARIEEEKKLQ LVVTVDDADK TPAPAPAPAT KVEERKQEKN  720
EVLSIAEKEA DLAAAGKSRW KPEATQVLIR LRTGMDDKFR EAKLKTPLWK EIASKLAEHG  780
YEHTHGQCKA MWSTLVKRYR NIIEDDGSSN KNWPFFDGMH AYLSDDPDS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A5e-833459419560RIBONUCLEASE J
5a0t_B5e-833459419560RIBONUCLEASE J
5a0v_A5e-833459419560RIBONUCLEASE J
5a0v_B5e-833459419560RIBONUCLEASE 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}.
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_024535802.10.0uncharacterized protein LOC9629060
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLD8RVM90.0D8RVM9_SELML; Uncharacterized protein (Fragment)
STRINGEFJ238040.0(Selaginella moellendorffii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP30821521
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. Banks JA, et al.
    The Selaginella genome identifies genetic changes associated with the evolution of vascular plants.
    Science, 2011. 332(6032): p. 960-3
    [PMID:21551031]
  3. 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]