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 KXZ54370.1
Organism
Gonium pectorale
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; Chlorophyceae; Chlamydomonadales; Volvocaceae; Gonium
Family C3H
Protein Properties Length: 240aa    MW: 27334.9 Da    PI: 9.0397
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KXZ54370.1genomeGPGRPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.54.2e-07101124226
                 -S---SGGGGTS--TTTTT-SS-SS CS
     zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                 +++ Cr + +  tC++G+ C+F+H 
  KXZ54370.1 101 REATCRQYEE-NTCNRGGYCNFMHL 124
                 6789**9999.*************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd125391.71E-59196No hitNo description
PROSITE profilePS5010210.3261597IPR000504RNA recognition motif domain
SMARTSM003615.1E-71893IPR003954RNA recognition motif domain, eukaryote
Gene3DG3DSA:3.30.70.3303.7E-192596IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018485.4E-362641IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549282.17E-1627100IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018485.4E-365476IPR009145U2 auxiliary factor small subunit
PRINTSPR018485.4E-3681105IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010311.55499126IPR000571Zinc finger, CCCH-type
PfamPF006425.5E-5101124IPR000571Zinc finger, CCCH-type
PRINTSPR018485.4E-36116128IPR009145U2 auxiliary factor small subunit
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0048573Biological Processphotoperiodism, flowering
GO:0089701Cellular ComponentU2AF
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 240 aa     Download sequence    Send to blast
MYQNPLLNAP LGPDGLPIRV DPKAAQEHFE DFYEDVFEEL AQHGELENLN VCDNFADHMV  60
GNVYAKFRDE DAAARALQAL TGRYYDGRPI VIEFSPVTDF REATCRQYEE NTCNRGGYCN  120
FMHLKPISRD LRKKLFGRYK RRERSRSRDR GDRRDRERDP RGRDRSRDRA DRGRGRSRSR  180
DRGGADRRRE TSEERRAKFA AWNAERDDRG GGGGGGEYGG GGYGAPPPGP PGGYGGGYQY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A1e-37113551179Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1171181RGRGRSRSRDR
2173181RGRSRSRDR
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA (By similarity). Probably active at the 3' splice sites. {ECO:0000250}.
UniProtNecessary for the splicing of pre-mRNA. {ECO:0000250}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_001696419.11e-95U2 snRNP auxiliary factor, small subunit
SwissprotQ9FMY51e-69U2AFB_ARATH; Splicing factor U2af small subunit B
SwissprotQ9ZQW82e-69U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A150GYH91e-171A0A150GYH9_GONPE; Uncharacterized protein
STRINGEDP083966e-95(Chlamydomonas reinhardtii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
ChlorophytaeOGCP204022
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.17e-21C3H family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Day IS, et al.
    Interactions of SR45, an SR-like protein, with spliceosomal proteins and an intronic sequence: insights into regulated splicing.
    Plant J., 2012. 71(6): p. 936-47
    [PMID:22563826]
  3. Kim DW,Jeon SJ,Hwang SM,Hong JC,Bahk JD
    The C3H-type zinc finger protein GDS1/C3H42 is a nuclear-speckle-localized protein that is essential for normal growth and development in Arabidopsis.
    Plant Sci., 2016. 250: p. 141-153
    [PMID:27457991]
  4. Park HY, et al.
    The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms.
    Plant Cell Rep., 2017. 36(7): p. 1113-1123
    [PMID:28432478]
  5. 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]