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 KN539646.1_FGP007
Organism
Oryza longistaminata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family M-type_MADS
Protein Properties Length: 554aa    MW: 63212.9 Da    PI: 10.1073
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN539646.1_FGP007genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF53.23.7e-171360249
                       ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
             SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                        i+nk + qvtf+kR  g++KKA+EL  L +a +av+ifs+t+  y +
  KN539646.1_FGP007 13 HIDNKERWQVTFTKRWGGLFKKASELALLAGASIAVVIFSETNLAYAF 60
                       69****************************************998877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006618.881464IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.62E-17578IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-9626IPR002100Transcription factor, MADS-box
SMARTSM004324.6E-14963IPR002100Transcription factor, MADS-box
PfamPF003196.5E-171460IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-92641IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-94162IPR002100Transcription factor, MADS-box
SuperFamilySSF566723.41E-9109203No hitNo description
CDDcd016512.06E-32109294No hitNo description
PfamPF013481.3E-5366417IPR024937Domain X
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006397Biological ProcessmRNA processing
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 554 aa     Download sequence    Send to blast
MRPLGRTSKG RQHIDNKERW QVTFTKRWGG LFKKASELAL LAGASIAVVI FSETNLAYAF  60
GDPSVDAVLL SYGPVPGEDA EPAPVHSGGL SKDVDLKMLR QAVGETRAED RVVQELLLLL  120
LEPVFEPRFS PKSHAFRPGR GPHTAIRSVR SHFAAYLWFI SADLTGVVDA LSPDTILSCV  180
QKAVSDRKVL SLLKSALNAP VRPGSVPPRE KELDGLAKKR LKRKVLRKSR KKKVLNENEP  240
KPDPYWLRGP REDAVEIRRQ LMEFCESTFG LRPENSMVEI EHITRGIEFL DHVITRRVIY  300
PTLRYTASGG NIVSEKGIGT LLSVTASLQR CIRHFRKLEL VKGDRDPEPL PCSPMLYSGQ  360
AHTNSQMNKF LETMADWYRY ADNRKKIVGF CAYVIRSSLA KLYAARYRLK SRAKVYKIAS  420
RDLSRPLRES TRNDAPEYSD LLRMGLVDII EGVQFARMSS IPSCDYTPFP RNWVPHHELV  480
LREYIKLQDP KFFCELHKTI KRKEINSPQD DVSRMVWYYK VYGVYDAKRS LQKLNDWKNT  540
DEAANKENQI LLDT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g2x_C2e-138219981196GROUP II INTRON-ENCODED PROTEIN LTRA
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1217232KKRLKRKVLRKSRKKK
2219231RLKRKVLRKSRKK
Functional Description ? help Back to Top
Source Description
UniProtNuclear-encoded maturase required for splicing of group-II introns in mitochondria (PubMed:16621844, PubMed:22429648). Necessary for mitochondrial biogenesis during early developmental stages (PubMed:22429648). Involved in the splicing of mitochondrial NAD4 transcripts (PubMed:16621844). Required for trans-splicing of NAD1 intron 1 and also functions in cis-splicing of NAD2 intron 1 and NAD4 intron 2 (PubMed:22429648). Required for the regulation of fundamental metabolic pathways such as amino acid metabolism, triacylglycerol degradation and polysaccharide synthesis (cellulose and starch) during the early stage of plant growth (PubMed:16621844). Implicated in stress responses (PubMed:22429648). {ECO:0000269|PubMed:16621844, ECO:0000269|PubMed:22429648}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN539646.1_FGP007
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1197780.0AK119778.1 Oryza sativa Japonica Group cDNA clone:002-172-H12, full insert sequence.
GenBankAL7139420.0AL713942.4 Oryza sativa chromosome 12, . BAC OSJNBa0009F05 of library OSJNBa from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBankAP0149680.0AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025877888.10.0nuclear intron maturase 1, mitochondrial
SwissprotQ9C8R81e-156NMAT1_ARATH; Nuclear intron maturase 1, mitochondrial
TrEMBLQ0INR30.0Q0INR3_ORYSJ; Os12g0407300 protein (Fragment)
STRINGOS12T0407300-010.0(Oryza sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60440.15e-15AGAMOUS-like 62
Publications ? help Back to Top
  1. Mohr G,Lambowitz AM
    Putative proteins related to group II intron reverse transcriptase/maturases are encoded by nuclear genes in higher plants.
    Nucleic Acids Res., 2003. 31(2): p. 647-52
    [PMID:12527773]
  2. Nakagawa N,Sakurai N
    A mutation in At-nMat1a, which encodes a nuclear gene having high similarity to group II intron maturase, causes impaired splicing of mitochondrial NAD4 transcript and altered carbon metabolism in Arabidopsis thaliana.
    Plant Cell Physiol., 2006. 47(6): p. 772-83
    [PMID:16621844]
  3. Keren I, et al.
    AtnMat2, a nuclear-encoded maturase required for splicing of group-II introns in Arabidopsis mitochondria.
    RNA, 2009. 15(12): p. 2299-311
    [PMID:19946041]
  4. Keren I, et al.
    nMAT1, a nuclear-encoded maturase involved in the trans-splicing of nad1 intron 1, is essential for mitochondrial complex I assembly and function.
    Plant J., 2012. 71(3): p. 413-26
    [PMID:22429648]
  5. Brown GG,Colas des Francs-Small C,Ostersetzer-Biran O
    Group II intron splicing factors in plant mitochondria.
    Front Plant Sci, 2014. 5: p. 35
    [PMID:24600456]
  6. Malik S,Upadhyaya KC,Khurana SP
    Phylogenetic Analysis of Nuclear-Encoded RNA Maturases.
    Evol. Bioinform. Online, 2017. 13: p. 1176934317710945
    [PMID:28607538]