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 NNU_020999-RA
Organism
Nelumbo nucifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo
Family C3H
Protein Properties Length: 349aa    MW: 41146.6 Da    PI: 9.2872
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NNU_020999-RAgenomeCASView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH28.62.5e-091437225
                   -S---SGGGGTS--TTTTT-SS-S CS
        zf-CCCH  2 ktelCrffartGtCkyGdrCkFaH 25
                   ++++C+f+++ G C++GdrC++ H
  NNU_020999-RA 14 DRVNCPFYFKIGACRHGDRCSRLH 37
                   6899******************** PP
2zf-CCCH20.86.8e-07177200226
                    -S---SGGGGTS--TTTTT-SS-SS CS
        zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                    +++ Cr + +  tC++G+ C+F+H 
  NNU_020999-RA 177 REATCRQYEE-NTCNRGGYCNFMHL 200
                    6789**9999.*************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.1121240IPR000571Zinc finger, CCCH-type
SMARTSM003560.00651339IPR000571Zinc finger, CCCH-type
PfamPF006425.2E-71437IPR000571Zinc finger, CCCH-type
PRINTSPR018483.1E-571837IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549283.57E-1532108IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018483.1E-573757IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3301.2E-2344172IPR012677Nucleotide-binding alpha-beta plait domain
CDDcd125392.42E-6244172No hitNo description
PROSITE profilePS501029.69544173IPR000504RNA recognition motif domain
PRINTSPR018483.1E-577590IPR009145U2 auxiliary factor small subunit
PRINTSPR018483.1E-57130152IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549283.57E-15135181IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018483.1E-57157181IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010311175202IPR000571Zinc finger, CCCH-type
SMARTSM003560.13175201IPR000571Zinc finger, CCCH-type
PfamPF006429.0E-5177200IPR000571Zinc finger, CCCH-type
PRINTSPR018483.1E-57192204IPR009145U2 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: 349 aa     Download sequence    Send to blast
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHTKP SISPTLLLSN MYQRPDMITT  60
GVDPQGQPLD PRKIQEHFED FYEDLFEELS KYGEIESLNI CDNLADHMVN FFELLQISFY  120
LLNIICQSHF IIRAQVGNVY VQFREEEHAA NALRNLTGRY YAGRPIIVDF SPVTDFREAT  180
CRQYEENTCN RGGYCNFMHL KKISRELRRQ LFGRYRRRHS PGHSRSRSPY KHRSYEERSH  240
GGRGYGRWYD DRDHHYHDDR GRRPRSRSPG RKRGRSRSPG GRRDRSPIRE GSAERRAKIQ  300
QWNREREQAE SANKDNNYST SNNESNGYDP HGEQYYEQQQ PPQKGGYGY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A5e-6912171185Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA. {ECO:0000250}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010278242.10.0PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_010278244.10.0PREDICTED: splicing factor U2af small subunit B-like
SwissprotQ9ZQW81e-122U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A1U8BE550.0A0A1U8BE55_NELNU; splicing factor U2af small subunit B-like
STRINGXP_010278242.10.0(Nelumbo nucifera)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G44785.17e-31C3H 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. 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]