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 Bradi4g28800.2.p
Common NameBRADI_4g28800, LOC100835466
Organism
Brachypodium distachyon
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family bHLH
Protein Properties Length: 963aa    MW: 107627 Da    PI: 6.8982
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi4g28800.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH12.60.00026872901130
                       CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC CS
               HLH   1 rrrahnerErrRRdriNsafeeLrellPka 30 
                       rr+++  +E +RR+ +N+ ++ Lr+ + k+
  Bradi4g28800.2.p 872 RRAMARSIELQRREALNHHISILRQKIWKL 901
                       7999*********************99885 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129520.776353449IPR001890RNA-binding, CRM domain
Gene3DG3DSA:3.30.110.607.4E-22354443IPR001890RNA-binding, CRM domain
SMARTSM011038.2E-17355438IPR001890RNA-binding, CRM domain
SuperFamilySSF754711.23E-22355443IPR001890RNA-binding, CRM domain
PfamPF019858.5E-30356438IPR001890RNA-binding, CRM domain
PROSITE profilePS5129517.531551648IPR001890RNA-binding, CRM domain
Gene3DG3DSA:3.30.110.603.3E-27552644IPR001890RNA-binding, CRM domain
SuperFamilySSF754718.5E-21552645IPR001890RNA-binding, CRM domain
SMARTSM011031.9E-15553637IPR001890RNA-binding, CRM domain
PfamPF019851.4E-22553637IPR001890RNA-binding, CRM domain
PROSITE profilePS5129518.534764864IPR001890RNA-binding, CRM domain
SuperFamilySSF754711.44E-21765863IPR001890RNA-binding, CRM domain
SMARTSM011033.5E-19766853IPR001890RNA-binding, CRM domain
Gene3DG3DSA:3.30.110.602.9E-21766863IPR001890RNA-binding, CRM domain
PfamPF019852.5E-20767853IPR001890RNA-binding, CRM domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003723Molecular FunctionRNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 963 aa     Download sequence    Send to blast
MALLFLSPAL SPKPPFHSTL RSTWPRRATC ISGSSTVSSP LRPTAAASPP STSSPYKAPA  60
LDGGTERRKK KRRNLKPSFE EQALRRWSAR APSQRASFPW QRQQQPQPAH RENEDAHDED  120
PSSDTLRSIV EYFDYDSSDD GDVGLDVRGH EGAGMGKDGV AHGEAAQDRD EESHSQPSYL  180
IGSRPVSAPW MHGEEEPSVD QLVSGPVGGD EEEVDTNGMV DDELGLVDGN EECAYNDDVF  240
EEEPMNGNLE GELFEDSATP TANSSFLMDF VVDQGSRGGG IDRSIRRSSV SSIVSTLRNS  300
MEESGPNATI GCSHEEDFVQ KLGSVLLPWE REDDDAFDGV RQGNRSNTEL AEKTIPEPEL  360
RRLRDAALRM KERMRIGPGG VTQAIVKSIH SKWSVDEVVK MRFEGPPSLN MKRTHEILED  420
RTGGTVIWRS GRSIVLYRGM NYNLRCVQSY AKIAEVDSSK KVSDVSTVVP SCVEHNLQKS  480
SADGVNRSTS IVSSSQGATE TFDIDSFLDQ LGPRYKDWSG RSPIPVDADL LPGVVPDYKP  540
PFRQLPYRTK LSLRDKEMTA LRRLARQTAP HFALGRNREH QGLASAIVKL WEKSTIVKIA  600
IKRGVPNTCN DRMAEEIKKL TGGVLISRNK EYIIFYRGND FMTPKIRQVL VEQQQQAITQ  660
QDQEELARLK ASASITLIPN ALKNPQVAGT LAETREAESR WGDLINDGRR KKERNHLILA  720
KHTSLLKNMT RKLILAKTKV AKAEMALAKV QEFLSPAELP TDLETVTDEE RFLFRRIGLK  780
MKAFLMLGRR EVFAGTVQNM HLHWKHRELV KIIVKGKSFA QVKHIAISLE AESGGVLISL  840
DKTTKGYSII VYRGKNYKRP QILKPRNLLT RRRAMARSIE LQRREALNHH ISILRQKIWK  900
LKSQLAQMRV AGGKQDADLL QTVEDDLSSD DDDIEDEGDE AYLQTYISDG EDDAGNESNE  960
YL*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
16671RRKKKR
26672RRKKKRR
36872KKKRR
Functional Description ? help Back to Top
Source Description
UniProtBinds specific group II introns in chloroplasts and facilitates their splicing. Acts on subgroup IIB introns. The substrates of the subgroup IIB also require the CRM domain proteins CAF1 or CAF2, with a simultaneous binding of CFM3 and CAF1 or CAF2 (PubMed:18799595). May influence the biogenesis of the mitochondrial small ribosomal subunit (By similarity). {ECO:0000250|UniProtKB:F4J2U9, ECO:0000269|PubMed:18799595}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi4g28800.2.p
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_010238097.10.0CRM-domain containing factor CFM3, chloroplastic/mitochondrial
SwissprotA7XN920.0CFM3_MAIZE; CRM-domain containing factor CFM3, chloroplastic/mitochondrial
TrEMBLI1IPM00.0I1IPM0_BRADI; Uncharacterized protein
STRINGBRADI4G28800.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP230433
Publications ? help Back to Top
  1. Asakura Y,Bayraktar OA,Barkan A
    Two CRM protein subfamilies cooperate in the splicing of group IIB introns in chloroplasts.
    RNA, 2008. 14(11): p. 2319-32
    [PMID:18799595]