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 OGLUM09G19780.2
Organism
Oryza glumaepatula
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: 374aa    MW: 42257.8 Da    PI: 9.21
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM09G19780.2genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B351.42e-1612911398
                     TT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
               B3 13 sgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                     + r  +p +f  ++ ++++++  +++l d+sg++W+ +l  +  s+++++  GWkeFv++n ++ g f+vF++d+ s+f   v+vf+
  OGLUM09G19780.2 12 EERKKIPSSFN-QClQNQPTG--MVSLVDRSGNKWSAEL--TSDSEGFFFVHGWKEFVRDNSIQCGQFLVFTYDKWSQF--SVTVFE 91
                     567899***98.554766665..8***************..********************************966888..888876 PP
2B352.58.9e-17268359398
                      EE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEE CS
               B3   3 kvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkv 96 
                      ++++ s+v     + +p +f++e+   ++++k +tl d++g+ Wev++ y   ++   +++GW +F+  n+L+  D++vF+l+++++   +v++
  OGLUM09G19780.2 268 QIMMESYVYVGFFMNIPCEFVRECL--PRTNKRITLWDPQGKAWEVNYVYYSDRSVGSFSGGWGKFAVGNNLEKFDVCVFELVQKDN--IKVHI 357
                      6789999999**************5..345678***************995555556799*********************998444..57887 PP

                      E- CS
               B3  97 fr 98 
                      +r
  OGLUM09G19780.2 358 YR 359
                      76 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086314.001193IPR003340B3 DNA binding domain
SMARTSM010194.1E-4893IPR003340B3 DNA binding domain
PfamPF023621.4E-141290IPR003340B3 DNA binding domain
CDDcd100171.34E-141290No hitNo description
SuperFamilySSF1019362.35E-201497IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.4E-181493IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.9E-26258359IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.44E-25259359IPR015300DNA-binding pseudobarrel domain
CDDcd100177.81E-24264359No hitNo description
SMARTSM010195.0E-15266361IPR003340B3 DNA binding domain
PROSITE profilePS5086313.352266361IPR003340B3 DNA binding domain
PfamPF023626.2E-15268359IPR003340B3 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: 374 aa     Download sequence    Send to blast
MCLIGCSEWK EEERKKIPSS FNQCLQNQPT GMVSLVDRSG NKWSAELTSD SEGFFFVHGW  60
KEFVRDNSIQ CGQFLVFTYD KWSQFSVTVF EPSGIDKIST FSAHPSKNVI IKTESDEGGM  120
VTAAITTEKM APALKENNGI TGKRTRDVDY LMEDRVVVFK KSSEANVCES SRRKRAGASA  180
GKSKVTSTSH NSTRGSSCSS DEDNSSSKSP NPPFLMRFLS GEVSRRGVSK GQRQLTVISQ  240
RRPVTEAEKD HALQRAREFK SKNPFAVQIM MESYVYVGFF MNIPCEFVRE CLPRTNKRIT  300
LWDPQGKAWE VNYVYYSDRS VGSFSGGWGK FAVGNNLEKF DVCVFELVQK DNIKVHIYRV  360
VPEITPHKLR SDPK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-1323936022142B3 domain-containing transcription factor VRN1
4i1k_B2e-1323936022142B3 domain-containing transcription factor VRN1
Search in ModeBase
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
TrEMBLA0A0E0B6E40.0A0A0E0B6E4_9ORYZ; Uncharacterized protein
STRINGOGLUM09G19780.10.0(Oryza glumipatula)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G42700.13e-19B3 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]