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 CCG012479.1
Organism
Populus euphratica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family MIKC_MADS
Protein Properties Length: 240aa    MW: 27421.5 Da    PI: 10.3723
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
CCG012479.1genomeLZUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF89.61.7e-28959151
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                 krien+  rqvtfskRrng+lKKA+ELS+LC+aev++iifs+tgk+y +ss
  CCG012479.1  9 KRIENSASRQVTFSKRRNGLLKKAFELSILCEAEVSLIIFSPTGKFYQFSS 59
                 79***********************************************96 PP
2K-box45.14.2e-16591123487
        K-box  34 eqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekel 87 
                  ++ h+ Ged+ +L lkeL+qLe+qL++++++iRskK++ + e+i+ l+   ++ 
  CCG012479.1  59 SHEHFTGEDIAKLGLKELKQLERQLKTGVERIRSKKKRAISEHIKLLKSEIRNK 112
                  689******************************************999876665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004327.4E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.637161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.44E-28261IPR002100Transcription factor, MADS-box
CDDcd002652.77E-35259No hitNo description
PRINTSPR004043.9E-29323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.1E-251057IPR002100Transcription factor, MADS-box
PROSITE profilePS512976.5712129IPR002487Transcription factor, K-box
PRINTSPR004043.9E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-293859IPR002100Transcription factor, MADS-box
PfamPF014861.6E-1259111IPR002487Transcription factor, K-box
Gene3DG3DSA:3.30.70.3301.2E-575144IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549285.97E-13109225IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3307.5E-7162224IPR012677Nucleotide-binding alpha-beta plait domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0000166Molecular Functionnucleotide binding
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: 240 aa     Download sequence    Send to blast
MGRGKVELKR IENSASRQVT FSKRRNGLLK KAFELSILCE AEVSLIIFSP TGKFYQFSSH  60
EHFTGEDIAK LGLKELKQLE RQLKTGVERI RSKKKRAISE HIKLLKSEIR NKQTGYPEGC  120
GFIDFVSRAA AERILQVYKG TTMPNSEQAF RLNWATLGAG ERRQDDGPDY TVFVGEQAAD  180
AKDYLPQETF RNVKPSVKCA KVVPDRVTGR SKGYGFIRLA DENEQRRPWL RLFSETFIIL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-17161161MEF2C
5f28_B1e-17161161MEF2C
5f28_C1e-17161161MEF2C
5f28_D1e-17161161MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtHeterogeneous nuclear ribonucleoprotein (hnRNP)-protein binding the poly(A) tail of mRNA and probably involved in some steps of pre-mRNA maturation. {ECO:0000250}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002316998.26e-67polyadenylate-binding protein RBP45C
RefseqXP_011030800.16e-67PREDICTED: polyadenylate-binding protein RBP45C-like
SwissprotQ93W343e-48RP45C_ARATH; Polyadenylate-binding protein RBP45C
TrEMBLA0A3N7FS481e-65A0A3N7FS48_POPTR; Uncharacterized protein
STRINGPOPTR_0011s14150.13e-68(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF11933360
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G11880.13e-28AGAMOUS-like 14
Publications ? help Back to Top
  1. Lorković ZJ,Wieczorek Kirk DA,Klahre U,Hemmings-Mieszczak M,Filipowicz W
    RBP45 and RBP47, two oligouridylate-specific hnRNP-like proteins interacting with poly(A)+ RNA in nuclei of plant cells.
    RNA, 2000. 6(11): p. 1610-24
    [PMID:11105760]
  2. Park JI, et al.
    Molecular characterization of two anther-specific genes encoding putative RNA-binding proteins, AtRBP45s, in Arabidopsis thaliana.
    Genes Genet. Syst., 2006. 81(5): p. 355-9
    [PMID:17159297]
  3. Peal L,Jambunathan N,Mahalingam R
    Phylogenetic and expression analysis of RNA-binding proteins with triple RNA recognition motifs in plants.
    Mol. Cells, 2011. 31(1): p. 55-64
    [PMID:21120628]