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 Thecc1EG027104t2
Common NameTCM_027104
Organism
Theobroma cacao
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma
Family C3H
Protein Properties Length: 856aa    MW: 99603.2 Da    PI: 8.5611
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG027104t2genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.22.1e-06222241625
                       -SGGGGTS--TTTTT-SS-S CS
           zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                       C+f+++tG C++G rC++ H
  Thecc1EG027104t2 222 CPFHLKTGACRFGQRCSRVH 241
                       ******************99 PP
2zf-CCCH26.31.3e-08351378126
                       --S---SGGGGTS..--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                       +k ++C  f+++   tC++G  C+F+H+
  Thecc1EG027104t2 351 WKVAICGEFMKSRlkTCSHGTACNFIHC 378
                       899************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.23216244IPR000571Zinc finger, CCCH-type
SMARTSM003563.4217243IPR000571Zinc finger, CCCH-type
PfamPF006422.2E-4221241IPR000571Zinc finger, CCCH-type
PRINTSPR018481.4E-36222241IPR009145U2 auxiliary factor small subunit
PRINTSPR018481.4E-36241261IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3304.0E-27247346IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS501029.627248348IPR000504RNA recognition motif domain
CDDcd125401.01E-49249347No hitNo description
SMARTSM003611.3E-5272344IPR003954RNA recognition motif domain, eukaryote
PRINTSPR018481.4E-36277292IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549285.08E-16280348IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018481.4E-36305327IPR009145U2 auxiliary factor small subunit
PRINTSPR018481.4E-36332356IPR009145U2 auxiliary factor small subunit
SMARTSM003560.11350379IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010310.559350380IPR000571Zinc finger, CCCH-type
PfamPF006425.5E-6351378IPR000571Zinc finger, CCCH-type
PRINTSPR018481.4E-36370382IPR009145U2 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: 856 aa     Download sequence    Send to blast
MGEAETALKE EEGGGERENH QMEKSRKEKR KQMKKMKRKQ VRKEAAEKER EAEEARLNDP  60
EEQMRIQREE EEERKRREIA LKEFEERERV WIEAMEMKRK AQEEEEKEEE EKRKDLKEDA  120
NGEQEEMSDD WEYIEGSPQI IWEGNEITVR KKQVRVPKKD ANQKSKEEDF VPQDADRPTS  180
NPLPPQSEAF ADYLNASSAQ QVLESVAKEV PNFGTEQDKA HCPFHLKTGA CRFGQRCSRV  240
HFYPDKSCTL LMRNMYNGPG LAWEQDEGLE YTDEEVERCY EEFYEDVHTE FLKFGEIVNF  300
KVCKNGAFHL RGNVYVHYKM LESAVLAYHS INGRYFAGKQ VKCEFVNLTR WKVAICGEFM  360
KSRLKTCSHG TACNFIHCFR NPGGDYEWAD WDKPPPRYWV KKMGALFGYS DEAGFEKQIE  420
QEHSGQSRNR SRVIKSDADR HRSRRSKSRE MNRLIGGADR SPCIEDDVEE SSHSQRGKNN  480
DRKQTKGLDG RSYRESKSLK WDQNREKNHD TSSDGGYSDS KRGKKIDRKR AKTLDGRSDR  540
QRSLTWDQNS EEIHDTSSDG GYSDSKRGKK NDRKQAKTLD GRSDRQRGLK WDENSEKIHT  600
TSSDGGYSDS KRGKENDRKQ AKVLDGGRSD RQRSLTWDQN SEEIHDTSSY GGYSDSKRGK  660
KNDRKQAKTL DGRSDRQRSL KCDENSEKIH DTSSDGSYSD SKRGKKNDRK RAKTLDGRSG  720
RQRSLKWDEN SEQIHYTSSD GGYSHSKRGK KNERKKAKLL DGRSDRHRSL KWDQNRERTL  780
DTSSDEGYSE RDIDAARDAD EVTHHCHAKE HSKHQSESLE YLADNRSFKN RDYEDTENSP  840
AQTKKRTRHR SSKGG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A1e-302133779167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17277ERKRRE
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX5860543e-45JX586054.1 Gossypium hirsutum clone NBRI_GE19787 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021298174.10.0LOW QUALITY PROTEIN: zinc finger CCCH domain-containing protein 5
TrEMBLA0A061G7B20.0A0A061G7B2_THECC; Zinc finger C-x8-C-x5-C-x3-H type family protein isoform 2
STRINGEOY257250.0(Theobroma cacao)
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
AT1G10320.11e-168C3H family protein
Publications ? help Back to Top
  1. Motamayor JC, et al.
    The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color.
    Genome Biol., 2013. 14(6): p. r53
    [PMID:23731509]