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 29609.m000599
Common NameLOC8262579, RCOM_0496850
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family C3H
Protein Properties Length: 857aa    MW: 101556 Da    PI: 6.5563
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
29609.m000599genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.22.1e-06221240625
                    -SGGGGTS--TTTTT-SS-S CS
        zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                    C+f+++tG C++G rC++ H
  29609.m000599 221 CPFHLKTGACRFGQRCSRVH 240
                    ******************99 PP
2zf-CCCH25.32.7e-08350377126
                    --S---SGGGGTS..--TTTTT-SS-SS CS
        zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                    +k ++C  ++++    C++G  C+F+H+
  29609.m000599 350 WKVAICGEYMKSRlqMCSRGTACNFIHC 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
PfamPF006422.2E-4220240IPR000571Zinc finger, CCCH-type
PRINTSPR018483.0E-38221240IPR009145U2 auxiliary factor small subunit
PRINTSPR018483.0E-38240260IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010210.207247347IPR000504RNA recognition motif domain
Gene3DG3DSA:3.30.70.3301.8E-25247345IPR012677Nucleotide-binding alpha-beta plait domain
CDDcd125406.44E-48248346No hitNo description
SMARTSM003617.5E-6271343IPR003954RNA recognition motif domain, eukaryote
PRINTSPR018483.0E-38276291IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549281.63E-16278348IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018483.0E-38304326IPR009145U2 auxiliary factor small subunit
PRINTSPR018483.0E-38331355IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010310.174349379IPR000571Zinc finger, CCCH-type
SMARTSM003560.05349378IPR000571Zinc finger, CCCH-type
PfamPF006426.3E-5350377IPR000571Zinc finger, CCCH-type
PRINTSPR018483.0E-38369381IPR009145U2 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: 857 aa     Download sequence    Send to blast
MAESNVEAEG EKEKEEERSM SRKEKRKERK RMKRKKVRKE VAEKEREEEE AKLDDPEEQK  60
RLQEMEEEEN QRIERERKEF EERERKFLEE IERKMKLLEE EEEEKERQKV LEDEQDAKKF  120
QVEKENEFND DDDWEYVEEG PAEIIWQGNE IIVRKKKIPK KKSADQQSRN EDDRPTSNPL  180
PPQSEAFAEY QKAPMPSAER MLENVAQQIP NFGTEQDKAH CPFHLKTGAC RFGQRCSRVH  240
FYPDKANTLL MKNMYNGPGL AWEQDEGLEH TDEEVERSYE EFYEDVHTEF LKYGEIVNFK  300
VCKNSSFHLR GNVYVQYKSL DSAVLAYCSI NGRYFAGKQV NCEFVNVTRW KVAICGEYMK  360
SRLQMCSRGT ACNFIHCFRN PGGDYEWADW DKPPPRYWIE KMTALFGYSD ESACDKQMEQ  420
DKFKQPRMSS KRIPAYTDRH HSSRSRSRDI YYSLHYSGKS DNEDDDEERT HRHWRSDDDR  480
KQIHIHDEKS YRKDYHLSNR KSHDMISDGG WSDGDSEADR ERNKRHGHGH VTKRSKHHSE  540
VTKHSTHWSS GKSKDSNHKA ASDEWSDGDS GADRERNNCH GHVAKRSKHQ SEVTKHSTRW  600
SSGKSKDSNH QENSDEWSDG GRNGQKEHSS AEVSEHRMKG VSLDDNRNST SKCSGADGYQ  660
SDREKHHSRM VRSSRHQSKV RSMDDLGDGK ESNRDEDRDR HDHPRKKRSR PHSRSSELSD  720
DYQDDRYRTR DTDLKDDWLD ENKERHQRHK RRHSRRSEQE ISDDEEISAK RLKEKSYSDE  780
TEIDKSHLKG KPVGRRSSRQ SHSSRKSIET NCSVESLNLS ENYEFNYVDS DTRCKDIEET  840
NEQDRWKPES PDRLELY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A2e-322123769167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
12435KRKERKRMKRKK
22533RKERKRMKR
32935KRMKRKK
Cis-element ? help Back to Top
SourceLink
PlantRegMap29609.m000599
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_002527847.10.0zinc finger CCCH domain-containing protein 5 isoform X2
TrEMBLB9SPC80.0B9SPC8_RICCO; U2 snrnp auxiliary factor, small subunit, putative
STRINGXP_002527847.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF47132433
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.11e-152C3H family protein