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 Oropetium_20150105_25334A
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 GeBP
Protein Properties Length: 948aa    MW: 102970 Da    PI: 6.4821
Description GeBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Oropetium_20150105_25334AgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF57329.81.7e-09675760397
                     DUF573   3 fqrlwseeDeivlLqGlidfkaktgkspsddidafyefvkksis.fkvsksqlveKirrLKkKfkkkvkkaksgkepsfskehd 85 
                                ++r ws+ D i +L +++   +++g  ++    a+   v+++++  + s s+l eK+r+LK +++k v+  +          ++
  Oropetium_20150105_25334A 675 PKRTWSNGDIIKILEAIVAHVKSEG--VVPKNAAILASVRDRLDrKDCSYSDLYEKVRSLKARYQKTVNVPSG--------GDE 748
                                789*****************99999..556678999999999972579******************9999433........344 PP

                     DUF573  86 qkifelskkiWg 97 
                                 ++++l++ iWg
  Oropetium_20150105_25334A 749 LEMYNLCEEIWG 760
                                567777777776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.287.403.9E-1872173IPR015866Serine-tRNA synthetase, type1, N-terminal
PfamPF024031.3E-2072175IPR015866Serine-tRNA synthetase, type1, N-terminal
TIGRFAMsTIGR004143.4E-13172499IPR002317Serine-tRNA ligase, type1
SuperFamilySSF465895.23E-2172181IPR010978tRNA-binding arm
Gene3DG3DSA:3.30.930.105.2E-133174503No hitNo description
SuperFamilySSF556811.23E-80183502No hitNo description
CDDcd007702.25E-163189499IPR033729Serine-tRNA ligase catalytic core domain
PROSITE profilePS5086221.722206492IPR006195Aminoacyl-tRNA synthetase, class II
PfamPF005873.2E-25290435IPR002314Aminoacyl-tRNA synthetase, class II (G/ P/ S/T)
PRINTSPR009814.7E-23331343IPR002317Serine-tRNA ligase, type1
PRINTSPR009814.7E-23343356IPR002317Serine-tRNA ligase, type1
PRINTSPR009814.7E-23383396IPR002317Serine-tRNA ligase, type1
PRINTSPR009814.7E-23400416IPR002317Serine-tRNA ligase, type1
PRINTSPR009814.7E-23418434IPR002317Serine-tRNA ligase, type1
PfamPF045041.3E-11676760IPR007592Protein of unknown function DUF573
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006434Biological Processseryl-tRNA aminoacylation
GO:0048481Biological Processplant ovule development
GO:0005739Cellular Componentmitochondrion
GO:0009507Cellular Componentchloroplast
GO:0004828Molecular Functionserine-tRNA ligase activity
GO:0005524Molecular FunctionATP binding
Sequence ? help Back to Top
Protein Sequence    Length: 948 aa     Download sequence    Send to blast
MLTCGRFLSS SAAATTASFS PLRTLTRSLL RRPSPRLLSS ATSAAATAVE PETKGGAAAS  60
AGAPKLQWKA AIDFKWIRDN RDAVEANIQS RNSAANLDLV LQLYDEYLAL QKEVERLRAE  120
RNAVANKMKG KLDPSVRQAL VEEGKNLKEA LITLEEDLVQ LSDKLQSEAQ SIPNATHPDV  180
PVGGEESSVV RKEVGSQRNF NFTIKDHLRL GKELDLFDFD AAAEVSGSKF YYLKNEAVLL  240
EMALVNWAIS EVSKKGFTPL ITPEIVRSSV VEKCGFQPRA QNTQVYSIGD SDQCLIGTAE  300
IPVGGIHMDS ILLESSLPLK YVAFSHCFRT EAGAAGAATR GLYRVHQFSK VEMFIFCRPE  360
ESDRWHEELI TIEEDLYASL GLHFKTLDMA TGDLGAPAYR KFDIEAWMPG LERYGEISSA  420
SNCTDYQSRR LGIRYRPSPS EPPPANAKKG KGAGSGPTQY LHTLNATAVA VPRLIICILE  480
NFQQEDGSVV IPEPLRPFMG GIEVLSPKPN SDSEAEEGLP LNSKPQMPPV NPQPRPSSAA  540
TGGDEEESEE ALQMRTRLPS PTTKTAHAHA APLPLHGASD SDEEEDGLSP DAGSEAVSAA  600
IRKSKTVEVE DKKKKKKRRR PAPESAPSGS VKKTKAVATL AGKGKEPEST PAAKTKNPEC  660
NVEKSGELSL RGESPKRTWS NGDIIKILEA IVAHVKSEGV VPKNAAILAS VRDRLDRKDC  720
SYSDLYEKVR SLKARYQKTV NVPSGGDELE MYNLCEEIWG ENAKVAIAAS VTTKSEKGQA  780
KKEKGGAVKV TRNSGTQEGS KKGHAVQVKA DINVKSNGGN MDEEHMDIDD ESLVPKKAST  840
KFQDGGTQAQ EETHEEDTKR GAGVQGTPRS LCELQSLYPL LASCVERIET QNPCGETMKR  900
AFGFIGDEKA NALETKIRAQ TLSEAKAQLR LGQIKNEVLK LLLDLSD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wle_A5e-9510050772476Seryl-tRNA synthetase
1wle_B5e-9510050772476Seryl-tRNA synthetase
2dq0_A1e-95725052444Seryl-tRNA synthetase
2dq0_B1e-95725052444Seryl-tRNA synthetase
2zr2_A1e-95725052444Seryl-tRNA synthetase
2zr2_B1e-95725052444Seryl-tRNA synthetase
2zr3_A1e-95725052444Seryl-tRNA synthetase
2zr3_B1e-95725052444Seryl-tRNA synthetase
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1610620DKKKKKKRRRP
2611619KKKKKKRRR
3613618KKKKRR
4613619KKKKRRR
5614619KKKRRR
6672677ESPKRT
Functional Description ? help Back to Top
Source Description
UniProtCatalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L-seryl-tRNA(Sec), which will be further converted into selenocysteinyl-tRNA(Sec) (By similarity). {ECO:0000250|UniProtKB:P0A8L1}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapOropetium_20150105_25334A
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0701100.0BT070110.1 Zea mays full-length cDNA clone ZM_BFc0014C08 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025828066.10.0serine--tRNA ligase, chloroplastic/mitochondrial isoform X1
SwissprotQ8RWT80.0SYSM_ARATH; Serine--tRNA ligase, chloroplastic/mitochondrial
TrEMBLA0A0A8XN000.0A0A0A8XN00_ARUDO; SRS
STRINGPavir.Ha00072.1.p0.0(Panicum virgatum)
Publications ? help Back to Top
  1. Kim YK, et al.
    Inactivation of organellar glutamyl- and seryl-tRNA synthetases leads to developmental arrest of chloroplasts and mitochondria in higher plants.
    J. Biol. Chem., 2005. 280(44): p. 37098-106
    [PMID:16107332]
  2. Duchêne AM, et al.
    Dual targeting is the rule for organellar aminoacyl-tRNA synthetases in Arabidopsis thaliana.
    Proc. Natl. Acad. Sci. U.S.A., 2005. 102(45): p. 16484-9
    [PMID:16251277]
  3. Berg M,Rogers R,Muralla R,Meinke D
    Requirement of aminoacyl-tRNA synthetases for gametogenesis and embryo development in Arabidopsis.
    Plant J., 2005. 44(5): p. 866-78
    [PMID:16297076]