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 OMERI04G12090.3
Organism
Oryza meridionalis
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: 353aa    MW: 39647 Da    PI: 9.6048
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI04G12090.3genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.11.2e-06283306126
                      --S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                      y+ e Cr++++   C++ ++C+FaH+
  OMERI04G12090.3 283 YGVEVCRDYLK-NMCNR-ESCRFAHP 306
                      899********.*****.*******9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.037104131IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.183104132IPR000571Zinc finger, CCCH-type
PfamPF146080.1110130No hitNo description
SMARTSM003560.21139165IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.836139166IPR000571Zinc finger, CCCH-type
PfamPF146083.6151164No hitNo description
PROSITE profilePS5010313.094181209IPR000571Zinc finger, CCCH-type
SMARTSM003560.019182208IPR000571Zinc finger, CCCH-type
SMARTSM003560.73212236IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.291216237IPR000571Zinc finger, CCCH-type
PfamPF146082.1217234No hitNo description
Gene3DG3DSA:4.10.1000.106.0E-4281305IPR000571Zinc finger, CCCH-type
SMARTSM003564.7E-4282307IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.338282308IPR000571Zinc finger, CCCH-type
PfamPF146080.013288306No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 353 aa     Download sequence    Send to blast
MASAETPNPD AEIPNTEAAA ADPAAAAATT TDPAAAGSPS PPLPPRKRRL SPTPSPTRRS  60
SRSRSPRRGR SRSRSRSRSR SRSRSRGRST SPRYPDGKRR RHNDLNVEVC RDFLRDRCAR  120
ADIECKYAHP HPTVAVDRDS KVTACADSLR NNCFRGRTCR YYHPPPHIQE SLLRSIGVED  180
PKVKMVCRDF TRGRCSRSAN ECRFLHHSPL EDCAIVCQDF LRGRCDRKSC RYSHVMAHPM  240
PPPMRDIPMQ YPDMVYMPPP APLGVPMMMP PPSAPAAFSG NNYGVEVCRD YLKNMCNRES  300
CRFAHPDLNN EFAVILSEEN AIDLPVAFTI HLQAQILLDK SQVGFNQYPT TSY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3d2n_A1e-14105172772Muscleblind-like protein 1
5u6h_A1e-141051721479Muscleblind-like protein 1
5u9b_A1e-141051721479Muscleblind-like protein 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17787RSRSRSRSRGR
27987RSRSRSRGR
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0606340.0AK060634.1 Oryza sativa Japonica Group cDNA clone:001-027-B10, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015636418.11e-159zinc finger CCCH domain-containing protein 28 isoform X2
SwissprotQ0JD071e-159C3H28_ORYSJ; Zinc finger CCCH domain-containing protein 28
TrEMBLA0A0E0DEL20.0A0A0E0DEL2_9ORYZ; Uncharacterized protein
STRINGOMERI04G11120.10.0(Oryza meridionalis)
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]