PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID OGLUM05G28360.1
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 C3H
Protein Properties Length: 348aa    MW: 37520.5 Da    PI: 8.4178
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM05G28360.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH48.41.5e-15274299126
                      --S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                      +ktelC+ + +tG C+yGd+C+FaHg
  OGLUM05G28360.1 274 FKTELCNKWEETGACPYGDQCQFAHG 299
                      79***********************9 PP
2zf-CCCH23.68.7e-08312337126
                      --S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                      ykt  Cr  +++G C+yG rC+F H+
  OGLUM05G28360.1 312 YKTQVCRMVLAGGVCPYGHRCHFRHS 337
                      9**********************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.109.5E-19268306IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.31E-10270305IPR000571Zinc finger, CCCH-type
SMARTSM003567.2E-10273300IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.601273301IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-12274299IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-12307337IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.18E-8307339IPR000571Zinc finger, CCCH-type
SMARTSM003568.9E-5311338IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.685311339IPR000571Zinc finger, CCCH-type
PfamPF006424.4E-5312337IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0051511Biological Processnegative regulation of unidimensional cell growth
GO:1901347Biological Processnegative regulation of secondary cell wall biogenesis
GO:0003729Molecular FunctionmRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 348 aa     Download sequence    Send to blast
MQEALLPPAH PGRFYSDFGP KPFGGGDQRL SSPNLLTNGG DLFYGCYSPF SPTRVLSPPP  60
PPRRAASFSH CSSSSDSVVD DGDGAGAAAA AAAATEHRLH LAHLALQYQE MANRFELCLS  120
HLADAADEAA ALRQENAELR VANNDLACRI AKFGGRQSSA IALAGDLRRL RLPKEQTVPA  180
LPPPPQSPPA ALMNPVAVPE KQAVLPKSIS IRSTGYQKLN QGGKHRVSKP VNVGSQRVFV  240
GIDGAEGGEH KVGVKKEEPP MGGLEFEVYN QGMFKTELCN KWEETGACPY GDQCQFAHGV  300
AELRPVIRHP RYKTQVCRMV LAGGVCPYGH RCHFRHSITP ADRFSFGH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A2e-22274337467Butyrate response factor 2
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
GenBankAK1063540.0AK106354.1 Oryza sativa Japonica Group cDNA clone:002-102-A03, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015640820.10.0zinc finger CCCH domain-containing protein 39
SwissprotQ6L5G10.0C3H39_ORYSJ; Zinc finger CCCH domain-containing protein 39
TrEMBLA0A0E0A3550.0A0A0E0A355_9ORYZ; Uncharacterized protein
STRINGOGLUM05G28360.10.0(Oryza glumipatula)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27753784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G66810.11e-58C3H 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]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]