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 cra_locus_2141_iso_5
Organism
Catharanthus roseus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus
Family C3H
Protein Properties Length: 1015aa    MW: 118611 Da    PI: 8.138
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
cra_locus_2141_iso_5genomeMPGR-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.54e-07299318625
                                          -SGGGGTS--TTTTT-SS-S CS
                              zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                                          C+f+++tG C++G rC++ H
  cra_locus_2141_iso_5_len_3545_ver_3 299 CPFHLKTGACRFGTRCSRVH 318
                                          ******************99 PP
2zf-CCCH277.9e-09479506126
                                          --S---SGGGGTS..--TTTTT-SS-SS CS
                              zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                                          +k ++C  ++++   +C++G+ C+F+H+
  cra_locus_2141_iso_5_len_3545_ver_3 479 WKVAICGEYMKSNlkICSRGSACNFIHC 506
                                          899************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.23293321IPR000571Zinc finger, CCCH-type
SMARTSM003561.7294320IPR000571Zinc finger, CCCH-type
PfamPF006429.1E-5298318IPR000571Zinc finger, CCCH-type
PRINTSPR018488.2E-33299318IPR009145U2 auxiliary factor small subunit
PRINTSPR018488.2E-33318338IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3304.2E-21324344IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5010211.162388476IPR000504RNA recognition motif domain
SMARTSM003600.0022389472IPR000504RNA recognition motif domain
Gene3DG3DSA:3.30.70.3304.2E-21394474IPR012677Nucleotide-binding alpha-beta plait domain
SMARTSM003611.5E-4404472IPR003954RNA recognition motif domain, eukaryote
SuperFamilySSF549283.19E-15406475IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018488.2E-33433455IPR009145U2 auxiliary factor small subunit
PRINTSPR018488.2E-33460484IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010310.822478508IPR000571Zinc finger, CCCH-type
SMARTSM003560.05478507IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-6479506IPR000571Zinc finger, CCCH-type
PRINTSPR018488.2E-33498510IPR009145U2 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: 1015 aa     Download sequence    Send to blast
XGRGRAANSN FYAXNKNPKT PPAGSVRISN KHPITVIGDS GGIELTIMEE NEPRSALAAE  60
SRMNRKEKRK AAKKEKRKQK RKELAEKDRW EDEVRLNDPE EQRQIQLEEE EERVRLERER  120
KEFEERERLF LEALARKKAQ EEEEEERRRV LSEEEQKLKE QDMEANGDEE WEYVEEGPPE  180
IIWQGNEIIV KKNKVRVKKK SSDNRFLEKE VLRITCTYYY WDXNACIGTS PSPFWQWTFE  240
GXNPILQGEN RPTSNPLPPQ SEAFADYSSA SGRLSAQQLL ENVAQQTPNF GTEQDKAHCP  300
FHLKTGACRF GTRCSRVHFY PDKSCTLLIK NMYNGPGLAW EQDEGLEVCX EVTTEVHHKM  360
TEVLGPGLAW LEFKDFHSVS CTSLNNISTI TIHLIPFFYT EEEVEHSFEE FYEDVHTEFL  420
KFGEIMNFKV CRNGSHHLRG NVYVHYKSLE SAMFAYHSIS GRYFAGKQVN CEFVAVTRWK  480
VAICGEYMKS NLKICSRGSA CNFIHCFRNP GGDYEWADWD KPPPRFWVEK MAALFGYSDQ  540
SEYDKKIETP GQFRDCSKRL MRDRDRYYYR RSQSKEIESS NRSLSDAYEE DNVRRINIQH  600
TNDDKRKLEV LDGRESREET WSRHLRQPSK KRFYDGDSDR DLLNRNRDAD MYQSSTRKRS  660
RYHQKELNDT QEACSIGCRN DAVLETDTSN RRKERYMREE HRKKSSRQHE DSEHKKISDS  720
TDSRKAQSSE DWESLSCNDH WDKRSYDSDS TCELSEGITG RCHNYGRKPL RHLNEASRLP  780
DNYIVSHKVS SKESRGKKSE QFNSERCPVR KRSSSGRKYH LSRKNEVGSS DEQKLSDEEH  840
AQKISSQNDR RRSKSCDSDI SYGSSQMGPV EFKEDLPKKS KTKSVSDEKF GYDHTNQKNQ  900
HHDDSRESLN EDIDRRGRWE PAQVDSEKQQ KHRRKSIGKN DKHNIGRASY DRSSDEYSKG  960
SMPGGSNKLS HRKAETSSKE MDSDAKLEGR GEDGKICGRK YRSHGSKRRH KEIKP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A4e-1639950564167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17280KKEKRKQKR
2690703RRKERYMREEHRKK
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
SwissprotQ9SY741e-175C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLA0A2G2W8H10.0A0A2G2W8H1_CAPBA; Zinc finger CCCH domain-containing protein 5
STRINGAT1G10320.11e-173(Arabidopsis thaliana)
STRINGXP_010252404.11e-172(Nelumbo nucifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA818966
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]