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 Sobic.009G221400.1.p
Common NameSb09g027530, SORBIDRAFT_09g027530
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family RAV
Protein Properties Length: 409aa    MW: 43036.6 Da    PI: 10.0687
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.009G221400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.41.5e-1281129155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                           s+ykGV   + +grW A+I++      r +r++lg+f  + eAa+a++ a+++++g
  Sobic.009G221400.1.p  81 SKYKGVVPQP-NGRWGAQIYE------RhQRVWLGTFTGEAEAARAYDVAAQRFRG 129
                           89****9888.8*********......44**********99*************98 PP
2B394.95.6e-30215315189
                           EEEE-..-HHHHTT-EE--HHH.HTT.............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--T CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLke 76 
                           f+k+ tpsdv+k++rlv+pk++ae+h             gg+  +++ l +ed +g++W+++++y+++s++yvltkGW++Fvk++gL +
  Sobic.009G221400.1.p 215 FDKTVTPSDVGKLNRLVIPKQHAEKHfplqlpaaaaavvGGE-CKGVLLNFEDATGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKGLHA 302
                           89***************************9999988886444.5899****************************************** PP

                           T-EEEEEE-SSSE CS
                    B3  77 gDfvvFkldgrse 89 
                           gD v F+++   +
  Sobic.009G221400.1.p 303 GDAVGFYRSAGGK 315
                           *******764433 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000187.18E-2381137No hitNo description
SuperFamilySSF541711.77E-1681137IPR016177DNA-binding domain
PfamPF008472.8E-881129IPR001471AP2/ERF domain
SMARTSM003803.2E-2682143IPR001471AP2/ERF domain
PROSITE profilePS5103219.86282137IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.5E-1982137IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.107.3E-40208331IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.4E-30213323IPR015300DNA-binding pseudobarrel domain
CDDcd100171.48E-27213311No hitNo description
PfamPF023621.8E-26215316IPR003340B3 DNA binding domain
SMARTSM010191.2E-19215325IPR003340B3 DNA binding domain
PROSITE profilePS5086312.929215324IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 409 aa     Download sequence    Send to blast
MDSTSCLLDD ASSGASTGNK NPAPAPAAAT GGKPLQRVGS GASAVMDAAE PGAEADSGSG  60
GAGRATGGCG VVSGNGKLPS SKYKGVVPQP NGRWGAQIYE RHQRVWLGTF TGEAEAARAY  120
DVAAQRFRGR DAVTNFRPLA ESDPEAAVEL RFLASRTKAE VVDMLRKHTY GEELAQNRRA  180
FAAASPAASP PPAKNNNPAA SSSSPTAVTA REHLFDKTVT PSDVGKLNRL VIPKQHAEKH  240
FPLQLPAAAA AVVGGECKGV LLNFEDATGK VWRFRYSYWN SSQSYVLTKG WSRFVKEKGL  300
HAGDAVGFYR SAGGKQQFFI DCKLRPKTTT TAASFVNATT TTAAPSPVKA VRLFGVDLLT  360
TPRPGPAVVA APEQEEIAMA NKRARDAIAA CTPVHMVFKK QCIYFALT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-5021233311125DNA-binding protein RAV1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.194611e-129leaf| root
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00025PBMTransfer from AT1G68840Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.009G221400.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0419620.0BT041962.2 Zea mays full-length cDNA clone ZM_BFb0089O18 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021302722.10.0AP2/ERF and B3 domain-containing protein Os05g0549800
SwissprotQ6L4H41e-179Y5498_ORYSJ; AP2/ERF and B3 domain-containing protein Os05g0549800
TrEMBLA0A1B6P9U10.0A0A1B6P9U1_SORBI; Uncharacterized protein
STRINGSb09g027530.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP45638203
Representative plantOGRP36516108
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-100RAV family protein
Publications ? help Back to Top
  1. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]