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 ORGLA11G0053000.1
Organism
Oryza glaberrima
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family B3
Protein Properties Length: 381aa    MW: 43018.8 Da    PI: 9.8078
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA11G0053000.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B354.42.3e-1720961698
                       EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                 B3 16 lvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                       l +p +f  ++ ++++++  +++l d+sg++W+ +l  +  s+++++  GWkeFv++n ++ g f+vF++d+rs+f   v+vf+
  ORGLA11G0053000.1 20 LKIPSSFN-QClQNQPTG--MVSLVDRSGNKWSAEL--TSDSEGFFFVHGWKEFVRDNSIQCGQFLVFTYDKRSQF--SVTVFE 96
                       88999998.554766665..8***************..*********************************99999..888876 PP
2B352.59.2e-17275366398
                        EE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
                 B3   3 kvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                        ++++ s+v     + +p +f++e+   ++++k +tl d++g+ Wev++ y   ++   +++GW +F+  n+L+  D++vF+l+++++   +v
  ORGLA11G0053000.1 275 QIMMESYVYVGFFMNIPCEFVRECL--PRTNKRITLWDPQGKAWEVNYVYYSDRSVGSFSGGWGKFAVGNNLEKFDVCVFELVQKDN--IKV 362
                        6789999999**************5..345678***************995555556799*********************998444..578 PP

                        EEE- CS
                 B3  95 kvfr 98 
                        +++r
  ORGLA11G0053000.1 363 HIYR 366
                        8776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086314.212598IPR003340B3 DNA binding domain
SMARTSM010191.9E-91298IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.5E-191898IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019368.11E-2119102IPR015300DNA-binding pseudobarrel domain
PfamPF023622.3E-152095IPR003340B3 DNA binding domain
CDDcd100173.29E-152095No hitNo description
Gene3DG3DSA:2.40.330.108.1E-26265366IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.44E-25266366IPR015300DNA-binding pseudobarrel domain
CDDcd100171.34E-23271366No hitNo description
PROSITE profilePS5086313.352273368IPR003340B3 DNA binding domain
SMARTSM010195.0E-15273368IPR003340B3 DNA binding domain
PfamPF023626.4E-15275366IPR003340B3 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
Sequence ? help Back to Top
Protein Sequence    Length: 381 aa     Download sequence    Send to blast
LFFGVGKEGI QLIRIRFEHL KIPSSFNQCL QNQPTGMVSL VDRSGNKWSA ELTSDSEGFF  60
FVHGWKEFVR DNSIQCGQFL VFTYDKRSQF SVTVFEPSGI DKISTFSAHP SKNVIIKTES  120
DEGGMVTAAI TTEKMAPALK ENNGITGKRT RDVDYLMEDR VVVFKKSSEA NVCESSRRKR  180
AGASAGKSKV TSTSHNSTRG SSCSSDEDNS SSKSPNPPFL MRFLSGEVSR RGRCVSKGQR  240
QLTVISQRRP VTEAEKDHAL QRAREFKSKN PFAVQIMMES YVYVGFFMNI PCEFVRECLP  300
RTNKRITLWD PQGKAWEVNY VYYSDRSVGS FSGGWGKFAV GNNLEKFDVC VFELVQKDNI  360
KVHIYRVVPE ITPHKLRSDP K
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-1324636722142B3 domain-containing transcription factor VRN1
4i1k_B2e-1324636722142B3 domain-containing transcription factor VRN1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA11G0053000.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1019410.0AK101941.1 Oryza sativa Japonica Group cDNA clone:J033074I03, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015615373.10.0B3 domain-containing protein Os11g0197600
SwissprotQ2R9D20.0Y1176_ORYSJ; B3 domain-containing protein Os11g0197600
TrEMBLI1QYD80.0I1QYD8_ORYGL; Uncharacterized protein
STRINGORGLA11G0053000.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP44613766
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G42700.12e-17B3 family protein
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]