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 Oropetium_20150105_11384A
Organism
Oropetium thomaeum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium
Family Trihelix
Protein Properties Length: 840aa    MW: 92342 Da    PI: 9.319
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Oropetium_20150105_11384AgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix69.47e-22747827186
                   trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdq 84 
                                +W+ +e++ Li++r +m++++++ k ++ lWee+s  m  +g++r+p qCk+ w +l ++y++ k++e+++     +t+pyf+ 
  Oropetium_20150105_11384A 747 KWKPEEIKSLIQMRGDMNDKFQSVKGRMVLWEEISGSMLNKGISRTPAQCKSLWTSLVQKYEESKRHEESK-----KTWPYFSA 825
                                7********************************************************************85.....78****** PP

                   trihelix  85 le 86 
                                ++
  Oropetium_20150105_11384A 826 MD 827
                                *8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.104.8E-6986336IPR001279Metallo-beta-lactamase
SuperFamilySSF562816.35E-6587467IPR001279Metallo-beta-lactamase
SMARTSM008495.7E-2699296IPR001279Metallo-beta-lactamase
PfamPF127062.9E-11111246IPR001279Metallo-beta-lactamase
PROSITE profilePS500907.503740804IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.601.5E-4743806IPR009057Homeodomain-like
PfamPF138373.3E-18746829No hitNo description
CDDcd122032.42E-22746811No 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: 840 aa     Download sequence    Send to blast
MAAIASVSSL CPCGIARRRS TPARTAASVS ATISCCAVAT PSSGKGSQES ITPRSRLRRA  60
EGATKSLEDS VKRKMEQFYE GLDGPPLRVL PIGGLGEIGM NCMLVGNYDR YILIDAGVMF  120
PDYDEFGVQK IIPDTTFIKK WSHKIEAVII THGHEDHIGA LPWVIPALDS TTPIYASSFT  180
MELIKKRLKE FGIFLSSRLK VFRVKKRFQA GPFEVEPIRV THSIPDCCGL VLRCGDGTIF  240
HTGDWKIDES PVDGKIFDRQ ALEELSKEGV TLMMSDSTNV LSPGRSISES VVAGSLLRHV  300
SEAKGRVITT QFASNIHRIG SIKAAADLTG RKLVFVGMSL RTYLEAAFKD GKAPLDPSTL  360
VKAEDMDAYA PKDLLVVTTG SQGEPRAALN LASYGGSHAL KLSKEDVLLY SAKVIPGNET  420
REEVLQIVKP QHFLPVHGEL LFLKEHELLG RSTGIRHTTV IKNGEMLGVS HLRSRRVLSN  480
GFVSLGKQDF QLMYSDGDKA FGTSTDLCID ERLRVASDGI IFVSMEVFRP SREHASTQSG  540
LKGKFKITTR CLWLDNGRLL DALYKAAHAA LSSCPVNCPL SHMERMVSEI LRKMVRKYSG  600
KRPDVIAVAM ENTTVGFTEQ LEAKSSGNTA TSHLSRNPAR SLEGSHKTSP DNPEMEIEET  660
IPEVERTSPV DATTSSNGEA FFSSDLHQPK TLEHFWESFK SPTAVKIARI VNGSAQGNKT  720
KVGKIGIISK DSKQSAPAPV RSSKKNKWKP EEIKSLIQMR GDMNDKFQSV KGRMVLWEEI  780
SGSMLNKGIS RTPAQCKSLW TSLVQKYEES KRHEESKKTW PYFSAMDRIL ACEGEMATK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3bk1_A2e-708761217562Metal dependent hydrolase
3bk2_A2e-708761217562Metal dependent hydrolase
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
PlantRegMapOropetium_20150105_11384A
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_004952679.10.0uncharacterized protein LOC101761263 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLK3YPU20.0K3YPU2_SETIT; Uncharacterized protein
STRINGPavir.Ab01874.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP49963542
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]