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.003G078100.1.p
Common NameSb03g006590, SORBIDRAFT_03g006590
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: 389aa    MW: 41360.6 Da    PI: 10.3477
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.003G078100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP240.37.9e-1382130155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                           s++kGV   + +grW A+I++      r +r++lg+f  +e Aa+a++ a+++++g
  Sobic.003G078100.1.p  82 SRFKGVVPQP-NGRWGAQIYE------RhARVWLGTFADEEAAARAYDVAALRYRG 130
                           689***9788.8*********......44*************************98 PP
2B397.87e-31197302193
                           EEEE-..-HHHHTT-EE--HHH.HTT............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkeg 77 
                           f+k+ tpsdv+k++rlv+pk++ae+h               + +++ l +ed +g++W+++++y+++s++yvltkGW++Fv+++gL++g
  Sobic.003G078100.1.p 197 FEKAVTPSDVGKLNRLVVPKQHAEKHfplkrapeasaaAATTGKGVLLNFEDGEGKVWRFRYSYWNSSQSYVLTKGWSRFVREKGLRAG 285
                           89*************************999888877775556699******************************************** PP

                           -EEEEEE-SS.SEE..E CS
                    B3  78 DfvvFkldgr.sefelv 93 
                           D++vF+++   se++l+
  Sobic.003G078100.1.p 286 DTIVFSHSTYsSEKQLF 302
                           ******98664555554 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008477.9E-882130IPR001471AP2/ERF domain
CDDcd000182.79E-1382138No hitNo description
SuperFamilySSF541711.11E-1682138IPR016177DNA-binding domain
PROSITE profilePS5103220.99583138IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.105.1E-2083138IPR001471AP2/ERF domain
SMARTSM003804.0E-2283144IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.7E-38194311IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.44E-29195307IPR015300DNA-binding pseudobarrel domain
CDDcd100177.94E-29196298No hitNo description
PfamPF023623.5E-28197303IPR003340B3 DNA binding domain
SMARTSM010194.9E-23197308IPR003340B3 DNA binding domain
PROSITE profilePS5086314.057197309IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation 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: 389 aa     Download sequence    Send to blast
MGIESMSPTA APAEDSSSSS SRFSAASTAT TESGAAQPRA ASAAPGGGAV VVGRDASLAD  60
EQAVTSQPLA ASTAAAVAQG SSRFKGVVPQ PNGRWGAQIY ERHARVWLGT FADEEAAARA  120
YDVAALRYRG REAATNFPGA GASAPELTFL AAHSKAEIVD MLRKHTYADE LRQGLRRGRG  180
MGARAQPTPA WARSLLFEKA VTPSDVGKLN RLVVPKQHAE KHFPLKRAPE ASAAAATTGK  240
GVLLNFEDGE GKVWRFRYSY WNSSQSYVLT KGWSRFVREK GLRAGDTIVF SHSTYSSEKQ  300
LFIDCKKTKT TTVATTDGAP VPAPAEKKPS EARVVRLFGV DIAGDGCQKR ARPVEIAFEH  360
GPQQELLKKK QCVGVAHHRS PALGAFLL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-4719630613115DNA-binding protein RAV1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.003G078100.1.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
GenBankCP0126090.0CP012609.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002457391.10.0AP2/ERF and B3 domain-containing protein Os01g0141000
SwissprotQ9AWS01e-148Y1410_ORYSJ; AP2/ERF and B3 domain-containing protein Os01g0141000
TrEMBLC5XQN80.0C5XQN8_SORBI; Uncharacterized protein
STRINGSb03g006590.10.0(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
AT1G68840.23e-84related to ABI3/VP1 2
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]