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.002G418200.1.p
Common NameSb02g043000, SORBIDRAFT_02g043000
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 B3
Protein Properties Length: 958aa    MW: 104988 Da    PI: 7.0597
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.002G418200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B359.46.5e-19365464198
                           EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                           f+kvl+ sd+++ grlvlpk +ae++   ++++e++ lt++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F+++
  Sobic.002G418200.1.p 365 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGRPLTIQDARGKEWHFQFRFwpNNNSRMYVLE-GVTPCIQSLQLQAGDTVTFSRI 452
                           99**************************555567778***************9989999999***9.********************88 PP

                           SSSEE..EEEEE- CS
                    B3  86 grsefelvvkvfr 98 
                           +  +++lv+++++
  Sobic.002G418200.1.p 453 D-PGGKLVMGFRK 464
                           7.78878888776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.2E-31357474IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.88E-21362465IPR015300DNA-binding pseudobarrel domain
CDDcd100178.25E-24363464No hitNo description
SMARTSM010192.1E-22365465IPR003340B3 DNA binding domain
PROSITE profilePS5086311.603365466IPR003340B3 DNA binding domain
PfamPF023623.7E-16365464IPR003340B3 DNA binding domain
PROSITE profilePS5105014.895626676IPR011124Zinc finger, CW-type
PfamPF074966.0E-12631673IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010030Biological Processpositive regulation of seed germination
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:2000034Biological Processregulation of seed maturation
GO:0005634Cellular Componentnucleus
GO:0005739Cellular Componentmitochondrion
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 958 aa     Download sequence    Send to blast
MAMPGGGAVA AKRCMNPACG GPASSVVGAG GDWRKGWPLR SGGFALLCDK CGLAYEQFVF  60
CDIFHQKESG WRDCSFCGKR LHCGCVASKN SYDLLDSGGV QCVTCMKNSA AQSASGQVVP  120
KLFQCPNNLR FLGKTDELLS SRKFEQPPSL MLDSRNDDIA IVNKSNHLFM VRGIEAGQSS  180
NILRQKEIEN GSRQIKWEQP TLSIGDMGRP FLTRSQSALE SPQCTRRDDN KDPTTDSTSE  240
SFSEACLSMS LGIASNGNRM EATSTAERPM LSPTTAIAEG RELATTLSPY QHAQRARHFL  300
TRPPRVGEGA AFDPTRDMFP HLRVARPPAE GRGRNQLLPR YWPRITDQEL QQISGDSNST  360
IVPLFEKVLS ASDAGRIGRL VLPKACAEAY FPPISQPEGR PLTIQDARGK EWHFQFRFWP  420
NNNSRMYVLE GVTPCIQSLQ LQAGDTVTFS RIDPGGKLVM GFRKATNTVS LPDSQISAIA  480
NGSILSETLF STANENIGVV SGYPGFLHSI KGAADLHPSS LYDHHMNSAD GDVSWNKADK  540
FGGRPDEGSL QFLQKRSRNI GSKSRRFLID AEDAMELKLT WEEAQELLRP APTAKPTVVM  600
IEDYEFEEYD EPPVFAKRSI FTIRATGEQD QWIQCDECSK WRRLPLNVIV ASKWTCTDNS  660
WDPKSCSCSA PEELTPKELQ SVMQQYEEMR RRKGSYGLKL NVAEMDASSL DALATAAVFG  720
EVGNQGTASV ATTTKHPRHR PGCTCIVCIQ PPSGKGPKHN PSCTCNVCMT VRRRFKTLMM  780
RKKQRQSERE EAEASKKITW VNREEPEGSN LSRSPQTLDT TRDNSDVTMF DKVADMNKGH  840
IDLNFHPAPA ARGDHGQHGV QQPRPVSMMG LLEVASRPLD NYMKQNGLTS LVGEQGGGSS  900
STATVPPGPV ESEERTSNEG RVTSASAERE PDAMAIDEAG ENQQDKAADD AAAPAAT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5yzy_C1e-673434671125B3 domain-containing transcription repressor VAL1
5yzz_C1e-673434671125B3 domain-containing transcription repressor VAL1
5z00_C1e-673434671125B3 domain-containing transcription repressor VAL1
5z00_G1e-673434671125B3 domain-containing transcription repressor VAL1
5z00_K1e-673434671125B3 domain-containing transcription repressor VAL1
5z00_M1e-673434671125B3 domain-containing transcription repressor VAL1
6j9a_A1e-673434672126B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1771782RRRFKTLMMRKK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.48960.0embryo| ovary| root
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.002G418200.1.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
GenBankBT0629270.0BT062927.1 Zea mays full-length cDNA clone ZM_BFc0008I17 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021308969.10.0B3 domain-containing protein Os07g0679700
SwissprotQ6Z3U30.0Y7797_ORYSJ; B3 domain-containing protein Os07g0679700
TrEMBLC5X5M10.0C5X5M1_SORBI; Uncharacterized protein
STRINGSb02g043000.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP65193748
Representative plantOGRP12361446
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G30470.10.0high-level expression of sugar-inducible gene 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]