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 Sphfalx0278s0008.1.p
Organism
Sphagnum fallax
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Sphagnophytina; Sphagnopsida; Sphagnales; Sphagnaceae; Sphagnum
Family Trihelix
Protein Properties Length: 985aa    MW: 108114 Da    PI: 8.9577
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sphfalx0278s0008.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix61.91.5e-19880963186
              trihelix   1 rWtkqevlaLiearremeerlrr.gklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                           +W  +e+++Lie+r+ m ++lr+ g++kkp W++v+  ++  gf+rsp+qC + w++l k+y+++ e +k +   + +++ yf+ ++
  Sphfalx0278s0008.1.p 880 KWRLDETHKLIEVRSVMTTQLRKdGSKKKPTWKDVAVTLAGLGFNRSPEQCSSMWSSLVKKYEAVVEERKAG---ALKEWTYFETMK 963
                           7*********************747999***************************************99987...5566******97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.3E-63131382IPR001279Metallo-beta-lactamase
SuperFamilySSF562812.03E-70132547IPR001279Metallo-beta-lactamase
SMARTSM008491.9E-24144341IPR001279Metallo-beta-lactamase
PfamPF127065.8E-11185292IPR001279Metallo-beta-lactamase
PfamPF075212.7E-8489535IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500907.317873938IPR017877Myb-like domain
PfamPF138377.8E-16878964No 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: 985 aa     Download sequence    Send to blast
MDSLLWVCPQ ECVAGNISNK GERVLRNGDH AAARSRLGSQ FVVGGRVGSR SLFSRHCGCW  60
GSSSSSSPSP PGIQIWRTQN GSRQAVSIRA GPQMAHRSRR HTGRHEGPGH SKDDAVQRKM  120
KVFHEGRDGP PLRILPIGGL GEIGMNCMLV GNYDRYIMID AGLMFPDYDD LGIQKVLPDT  180
GFIRRWRDKI EAVIITHGHE DHIGALPWVV PALDPKTPIY ATGFTMQLIK KRLKEFNIPS  240
EGRLRTFSMR SRFNAGPFEL EPIRVTHSIP DCCGLVMRCA DGIIFHTGDW KIDESPVDGN  300
VFDRTALEQL QKEGVTLMMS DSTNVLSPGR TKSEADVAEA MMRKIMAAKG RRVITTQFAS  360
NVHRLGCLNA AAEVSGRKLV FIGLSLRTYL EAAWRDGQAP FDPSILVKAE DMDAYAPKDL  420
LVVTTGSQAE PRAALNLASL GTSRLLKLQK EDVVLYSAKM IPGNETRVVK MMNRIAELGP  480
TITMGRGDNL HTSGHAYRGE LEEVLRLVKP QHFLPVHGEF AFLKEHELLG KASGIRHTAV  540
IKNGEMLGVA PLRNGRVLSS GFSLLGREKM KLMYNDGDRA FGTATDLCLQ ERMKIALEGI  600
VIASVEVMRG DESTMSKDED EEELQEEQDE ADEYGLQARV RITTRCLWTD NGKLLEALQK  660
AADLALVSCP KGARLSMVER HLGAVLRKVV QKYSNRRPEV IVIATDSSEA VGVNKRTPQR  720
HQTPRDIWSG FSIDSKVGSI EGPAPRDEVR PAVETIPSSV ESASPSVVRE IPAVDPIEDG  780
VQFVTAPAVE AISAVKNVAV KAISAVESVV SNDDGVDAAS LHPSPKSVVV KNIKETMLES  840
NDLPTRGAPP TPTTREEAEE ASMPGKNQEE APSSPKRRQK WRLDETHKLI EVRSVMTTQL  900
RKDGSKKKPT WKDVAVTLAG LGFNRSPEQC SSMWSSLVKK YEAVVEERKA GALKEWTYFE  960
TMKAALSKQG KSKSSKSPVA ASTR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A3e-8013260119476RIBONUCLEASE J
5a0t_B3e-8013260119476RIBONUCLEASE J
5a0v_A3e-8013260119476RIBONUCLEASE J
5a0v_B3e-8013260119476RIBONUCLEASE 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_024358144.10.0uncharacterized protein LOC112273491
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A2K1IUS10.0A0A2K1IUS1_PHYPA; Uncharacterized protein
STRINGPP1S192_99V6.10.0(Physcomitrella patens)
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]