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 cra_locus_1239_iso_6
Organism
Catharanthus roseus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus
Family M-type_MADS
Protein Properties Length: 111aa    MW: 12533.5 Da    PI: 10.4793
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
cra_locus_1239_iso_6genomeMPGR-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF89.51.8e-281058250
                                        ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
                              SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                                        ri+n++ rqvtfskRrng+lKKA+EL +LCdaev viifsstgkly+++
  cra_locus_1239_iso_6_len_532_ver_3 10 RIDNSTSRQVTFSKRRNGLLKKAKELAILCDAEVGVIIFSSTGKLYDFA 58
                                        8***********************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.5E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.525161IPR002100Transcription factor, MADS-box
CDDcd002651.75E-45278No hitNo description
SuperFamilySSF554556.02E-33282IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004049.2E-29323IPR002100Transcription factor, MADS-box
PfamPF003193.2E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004049.2E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004049.2E-293859IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 111 aa     Download sequence    Send to blast
MGRGKIVIRR IDNSTSRQVT FSKRRNGLLK KAKELAILCD AEVGVIIFSS TGKLYDFANS  60
SMKSVIERYN KVKEEHHQLA NPTSEVKVTS NLQLSSKLQF IMTHCMTDAF P
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-22181181MEF2C
5f28_B2e-22181181MEF2C
5f28_C2e-22181181MEF2C
5f28_D2e-22181181MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Required for root plasticity in response to nitrate, NO(3)(-). Promotes lateral root growth in a NRT1.1-dependent manner. {ECO:0000269|PubMed:15667327, ECO:0000269|PubMed:17148611, ECO:0000269|PubMed:9430595}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by nitrate in root cell culture, (PubMed:9430595, PubMed:17148611). In roots, seems induced by nitrogen (N) deprivation (e.g. nitrate free medium) but rapidly repressed by N re-supply (e.g. nitrate, glutamine and ammonium) (PubMed:16021502). Slight repression in shoots during nitrogen (N) deprivation. {ECO:0000269|PubMed:16021502, ECO:0000269|PubMed:17148611, ECO:0000269|PubMed:9430595}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027094494.13e-55MADS-box transcription factor 23-like isoform X2
RefseqXP_027149248.13e-55MADS-box transcription factor 27-like isoform X2
SwissprotQ9SI383e-48ANR1_ARATH; MADS-box transcription factor ANR1
TrEMBLX5DS452e-53X5DS45_COFAR; AGL16
STRINGXP_010671232.16e-52(Beta vulgaris)
STRINGEOY155231e-52(Theobroma cacao)
STRINGXP_008357560.16e-52(Malus domestica)
STRINGXP_010254615.15e-52(Nelumbo nucifera)
STRINGXP_010104581.17e-53(Morus notabilis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA4024625
Publications ? help Back to Top
  1. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  2. Yan Y,Wang H,Hamera S,Chen X,Fang R
    miR444a has multiple functions in the rice nitrate-signaling pathway.
    Plant J., 2014. 78(1): p. 44-55
    [PMID:24460537]
  3. Lei L, et al.
    Nitrogen use efficiency is regulated by interacting proteins relevant to development in wheat.
    Plant Biotechnol. J., 2018. 16(6): p. 1214-1226
    [PMID:29193541]
  4. Sun CH, et al.
    Chrysanthemum MADS-box transcription factor CmANR1 modulates lateral root development via homo-/heterodimerization to influence auxin accumulation in Arabidopsis.
    Plant Sci., 2018. 266: p. 27-36
    [PMID:29241564]