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 XP_010534691.1
Organism
Tarenaya hassleriana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Cleomaceae; Tarenaya
Family C3H
Protein Properties Length: 743aa    MW: 86964.4 Da    PI: 7.2955
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_010534691.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.41.8e-06221240625
                     -SGGGGTS--TTTTT-SS-S CS
         zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                     C+f+++tG C++G rC++ H
  XP_010534691.1 221 CPFHLKTGACRFGQRCSRVH 240
                     ******************99 PP
2zf-CCCH29.51.3e-09350377126
                     --S---SGGGGTS..--TTTTT-SS-SS CS
         zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                     +k ++C  ++++   tC++G++C+F+H+
  XP_010534691.1 350 WKVAICGEYMKSRlkTCSRGSSCNFIHC 377
                     899************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.23215243IPR000571Zinc finger, CCCH-type
SMARTSM003563.4216242IPR000571Zinc finger, CCCH-type
PfamPF006421.9E-4220240IPR000571Zinc finger, CCCH-type
PRINTSPR018481.5E-37221240IPR009145U2 auxiliary factor small subunit
PRINTSPR018481.5E-37240260IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3302.8E-26246345IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5010210.087247347IPR000504RNA recognition motif domain
CDDcd125403.52E-50248346No hitNo description
SMARTSM003612.2E-7268343IPR003954RNA recognition motif domain, eukaryote
PRINTSPR018481.5E-37276291IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549287.12E-17279347IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018481.5E-37304326IPR009145U2 auxiliary factor small subunit
PRINTSPR018481.5E-37331355IPR009145U2 auxiliary factor small subunit
SMARTSM003560.013349378IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.62349379IPR000571Zinc finger, CCCH-type
PfamPF006422.6E-7350377IPR000571Zinc finger, CCCH-type
PRINTSPR018481.5E-37369381IPR009145U2 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: 743 aa     Download sequence    Send to blast
MEQPNGTGGE GERGGESAAK SRREKRKAMK KMRRKQVRKE MAEKEREDAE AKERLCDPVE  60
QERLRAADEE EARRRERELK EFEERERAWL EAMELKKKKE EAEEEAEREE EARRKKELEG  120
SRKLENECDE DDEWEHVEEG PPEIIFQGDE IILRKKKVRV PKKSHKLVEA HEIADRPTSN  180
PLPPETEAFT DLQKASSAQQ VLENVAHQLP NFGTEQDKAH CPFHLKTGAC RFGQRCSRVH  240
FYPDKSCTLL MKNMYTGPGI AWEQDEGLEY SEDEVERCYE EFYEDVHTEF LKYGELVNFK  300
VCRNGSFHLR GNVYVHYRSL ESAILAYQSI NGRYFAGKQV QCEFVNISRW KVAICGEYMK  360
SRLKTCSRGS SCNFIHCFRN PGGDYEWADY DKPPPRYWIR KMVALFGYSD EYMKQRECES  420
SSTLKDSGSD SHRRPARRSR SRDGGYVSVR ERCGDTSEGS HGHRAGRVED HGHDERGTLS  480
SDTKEGSSGR EYARRTLYRE SKWSDCTPGY WVTRERIREQ HSDDDSSDGD GDTKRFYKRK  540
RSNHYGRPAF EVRGEQLDDE KEQKSSRKRN REGSSSTDNQ VNTIQDRSKH RHERNSSRSS  600
PGDWLEEDFV EKRHHHHKRK GSYPQDDVSD RSNVQNLGST RDRRNSRQRK RDSGLKYGTR  660
DDETHPSEEK SEEETWEGRH HRHRRRDSRP KHEILPSANN YPKERNSETN PCKSSSASLV  720
CETKDYVDGI ERWKPHCSGD EST
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A1e-312063763167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13035KMRRKQ
296115KKKEEAEEEAEREEEARRKK
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_010534691.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2266841e-124AK226684.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL07-54-F13.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010534691.10.0PREDICTED: zinc finger CCCH domain-containing protein 5
SwissprotQ9SY740.0C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLA0A1P8AVS10.0A0A1P8AVS1_ARATH; Zinc finger C-x8-C-x5-C-x3-H type family protein
STRINGXP_010534691.10.0(Tarenaya hassleriana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM59752025
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.10.0C3H 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]