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 GSMUA_Achr6P12770_001
Organism
Musa acuminata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Zingiberales; Musaceae; Musa
Family C3H
Protein Properties Length: 834aa    MW: 97169.3 Da    PI: 7.2738
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSMUA_Achr6P12770_001genomeCIRADView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH231.4e-07242261625
                            -SGGGGTS--TTTTT-SS-S CS
                zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                            C+f+++tG C++G+rC++ H
  GSMUA_Achr6P12770_001 242 CPFHLKTGACRFGPRCSRVH 261
                            ******************99 PP
2zf-CCCH27.55.6e-09371398126
                            --S---SGGGGTS..--TTTTT-SS-SS CS
                zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                            +k ++C  ++++   tC++G+ C+F+H+
  GSMUA_Achr6P12770_001 371 WKVAICGEYMKSKlkTCSHGSACNFIHC 398
                            899************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.512236264IPR000571Zinc finger, CCCH-type
SMARTSM003561.2237263IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-5241261IPR000571Zinc finger, CCCH-type
PRINTSPR018481.6E-36242261IPR009145U2 auxiliary factor small subunit
PRINTSPR018481.6E-36261281IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3303.0E-24267366IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS501028.962268368IPR000504RNA recognition motif domain
CDDcd125402.92E-45269366No hitNo description
PRINTSPR018481.6E-36297312IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549287.76E-15300368IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018481.6E-36325347IPR009145U2 auxiliary factor small subunit
PRINTSPR018481.6E-36352376IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010311370400IPR000571Zinc finger, CCCH-type
SMARTSM003560.04370399IPR000571Zinc finger, CCCH-type
PfamPF006421.5E-6371398IPR000571Zinc finger, CCCH-type
PRINTSPR018481.6E-36390402IPR009145U2 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:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 834 aa     Download sequence    Send to blast
MSEPQPTDSF AGDPPPMADP SSGAVSPEPV AEAGATADVG CTSRKEKRKA LKKLKRKQTR  60
REAAIREREE DEARSNDPEE QRKIRLREQE EVEIAERERK LFEERERLWF EAAAARKAAE  120
EEEEQRRKEL MEKSQEKNQH DAHVNEVDGD DEWDYIEEGP AEIIWQGNEI IVKKKRVRVA  180
KKNANKQQSE EDDNRPTSNP LPPQSVAFAS YMNGPSISAQ EVLERVAQEV PNFGTEQDKA  240
HCPFHLKTGA CRFGPRCSRV HFHPDKSCTL LIKNMYNGPG LVSEQDEGLE YTDEEVERCY  300
EEFYEDVHTE FLKFGELVNF KVCKNGSYHL RGNVYVHYMF LDSAVLAYNN INGRFFAGKQ  360
ITCEFVGVTK WKVAICGEYM KSKLKTCSHG SACNFIHCFR NPGGDYEWAD WDNPPPKYWI  420
RKMIALFGPS NEYEHHKQVD LKEFDRPRCS DRKRTPIDKC RYFSRRSDSE LDELDNDSPA  480
KNRREQSSRS KEKPASLEKH ERSEEYDKLN YYDDREYKRK HREDSLGQKR VKPYVNEHMK  540
SKRYKSRFQE QQKYAQFSDY TDDDRELSDG HSNSLSSDKS SHRLSIDEER YNGRSCSDDL  600
GSDVDPSRRI TSQHSGCLTE SREYGRLSKH KSYDYEIDGH SGKFGKPNDH HLRVSSHDLD  660
WKARSEGSDL EDADARLPHS RSRREKKHDR SSRKRNLHQE KCDDNDRSDE PSNKKLKRKE  720
EKRYSGSSLR IRSVGISRPR WVVDRSAAGS WGERGGKGSV CVGILDSWFL WVFSERLSRN  780
WDYFSGFSGF QDRVNFEGQY ESLVGFDSRV RSGRRRDPIH LRLSYTLWSW GNET
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A7e-322333979167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1692716RKRNLHQEKCDDNDRSDEPSNKKLK
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_009405189.10.0PREDICTED: zinc finger CCCH domain-containing protein 5 isoform X1
SwissprotQ9SY741e-178C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLM0T6H50.0M0T6H5_MUSAM; Uncharacterized protein
STRINGGSMUA_Achr6P12770_0010.0(Musa acuminata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP92961317
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.11e-142C3H 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]