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 Brast05G107300.1.p
Organism
Brachypodium stacei
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: 107878 Da    PI: 6.5351
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast05G107300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH12.50.00027872901130
                         CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC CS
                 HLH   1 rrrahnerErrRRdriNsafeeLrellPka 30 
                         rr+++  +E +RR+ +N+ ++ Lr+ + k+
  Brast05G107300.1.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 profilePS5129520.723353449IPR001890RNA-binding, CRM domain
Gene3DG3DSA:3.30.110.601.2E-21355443IPR001890RNA-binding, CRM domain
SMARTSM011037.4E-17355438IPR001890RNA-binding, CRM domain
SuperFamilySSF754712.09E-22355443IPR001890RNA-binding, CRM domain
PfamPF019859.4E-30356438IPR001890RNA-binding, CRM domain
PROSITE profilePS5129517.584551648IPR001890RNA-binding, CRM domain
Gene3DG3DSA:3.30.110.602.0E-27552644IPR001890RNA-binding, CRM domain
SuperFamilySSF754715.36E-21552645IPR001890RNA-binding, CRM domain
SMARTSM011031.1E-15553637IPR001890RNA-binding, CRM domain
PfamPF019851.5E-22553637IPR001890RNA-binding, CRM domain
PROSITE profilePS5129518.857764864IPR001890RNA-binding, CRM domain
Gene3DG3DSA:3.30.110.603.4E-22765863IPR001890RNA-binding, CRM domain
SuperFamilySSF754712.35E-22765863IPR001890RNA-binding, CRM domain
SMARTSM011032.5E-20766853IPR001890RNA-binding, CRM domain
PfamPF019855.7E-21767853IPR001890RNA-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
MALHFPPPAL LPKPPFHSIL RSTWPRRAIC ISGSSTVSSP LRPTAAAPSP STSSPYKAPV  60
LEGGTERRKK KRRNLKPSFE EQALRRWSAR APSQRASFPW QRQQQPQPAH RENEDAHDQE  120
PSSDTLRSIV EYFGYDSSDD DDGGLDVRGD EGAGMGKDGV TLGEAAQDRD EESRSQPSYL  180
IGSLPVSAPW MHGEDEPSVE QLVSGPVGGD EEEVDMNGVF DDELGLVDGD EECAYNDDVF  240
EEEPMTGNLE RELLEDSATP TANSSFLMDF VVDQGSRGGG IDRSIRRSSV SSIVSTLRNS  300
MEESGPNATI GCSKEEDFVQ KLGSVLLPWE REEDDAFDGV RQGKRSNTEL AETTIPELEL  360
RRLRDAALRM KERMRIGPGG VTQAIVESIH SKWTVDEVVK MRFEGPPSLN MKRTHEILED  420
RTGGTVIWRS GRSIVLYRGM NYNLRCVQSF AKIAEVDSSK KVSDVSTVVP SCVEHNLQKS  480
SADGVNRSTS IVSSSQGSTE TFDIDSFLDQ LGPRYKDWSG RSPIPVDADL LPGLVPDYKP  540
PFRQLPYRTK LSLRDKEMTA LRRLARQTAP HFALGRNREH QGLASAIVKL WEKSTIVKIA  600
IKRGVPNTCN DRMAEEIKKL TGGVLVSRNK EYIIFYRGND FMTPKIRQVL VEQQQQAITQ  660
QDQEELARLK ASASITLIPN ALTNPLVAGT LAETREAESR WGDLLNDERR KKEKNHLILA  720
KHTSLLKNMT RKLILAKTKV AKAEMALAKV QEFLSPAELP TDLETITDEE RFLFRRIGLK  780
MKAFLMLGRR EVFAGTVQNM HLHWKHRELV KIIVKGKSFA QVKHIAISLE AESGGVLISL  840
DKTTKGYSII LYRGKNYKRP QILKPRNLLT RRRAMARSIE LQRREALNHH ISILRQKIWK  900
LKSQLAQMRV AGGKQDAELL QTVEDDLSSD DDNIEDEGDE AYLQTYISDD EDDAGNDSNE  960
YL*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
16671RRKKKR
26672RRKKKRR
36872KKKRR
4708713RRKKEK
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}.
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
PlantRegMapBrast05G107300.1.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
SwissprotQ2R1U80.0CFM3_ORYSJ; 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]