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 PSME_00022880-RA
Organism
Pseudotsuga menziesii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga
Family C3H
Protein Properties Length: 186aa    MW: 21207.9 Da    PI: 5.0814
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PSME_00022880-RAgenomePRSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH24.54.7e-08118137625
                       -SGGGGTS--TTTTT-SS-S CS
           zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                       C+f+ +tG C++G+rC++aH
  PSME_00022880-RA 118 CPFHIKTGACRFGARCSRAH 137
                       ******************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.483112140IPR000571Zinc finger, CCCH-type
PfamPF006423.5E-5117137IPR000571Zinc finger, CCCH-type
PRINTSPR018485.1E-12118137IPR009145U2 auxiliary factor small subunit
PRINTSPR018485.1E-12137157IPR009145U2 auxiliary factor small subunit
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0089701Cellular ComponentU2AF
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 186 aa     Download sequence    Send to blast
AFFSNNVLFS DDFLQAEQAA QKEEEENWEY VEDGPAEIIW QGNEIIVQKK RIRVPKRKSD  60
EKTRVEDSDQ PISNPLPPQH AAFADYQKVT SSTTGLKVFD GIEQQIPNFG TEQDKAHCPF  120
HIKTGACRFG ARCSRAHFYP DKSCTILMKS MYNGPGLTWE QDEGLEVCHI HVCMCLLLYP  180
VASFNF
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_021659306.18e-75LOW QUALITY PROTEIN: zinc finger CCCH domain-containing protein 5-like
SwissprotQ9SY743e-59C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLA0A0B0MVT42e-70A0A0B0MVT4_GOSAR; Uncharacterized protein
STRINGERM997296e-68(Amborella trichopoda)
STRINGGorai.005G120000.12e-70(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.15e-61C3H family protein
Publications ? help Back to Top
  1. Lorković ZJ,Wieczorek Kirk DA,Lambermon MH,Filipowicz W
    Pre-mRNA splicing in higher plants.
    Trends Plant Sci., 2000. 5(4): p. 160-7
    [PMID:10740297]
  2. Domon C,Lorković ZJ,Valcárcel J,Filipowicz W
    Multiple forms of the U2 small nuclear ribonucleoprotein auxiliary factor U2AF subunits expressed in higher plants.
    J. Biol. Chem., 1998. 273(51): p. 34603-10
    [PMID:9852132]