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 ORGLA06G0137900.1
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 C3H
Protein Properties Length: 694aa    MW: 79109.5 Da    PI: 6.8724
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA06G0137900.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH29.11.7e-0987113127
                        --S---SGGGGTS--TTTTT-SS-SSS CS
            zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                        ++++ C+++ ++G Ck+G +C+F+H+p
  ORGLA06G0137900.1  87 PGEPDCSYYVKFGSCKFGMNCRFNHPP 113
                        5789*********************96 PP
2zf-CCCH331e-10156179326
                        S---SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                        t lC++++  G+Ck+G +CkF H+
  ORGLA06G0137900.1 156 TGLCSYYMNRGICKFGTNCKFDHP 179
                        779********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501039.8074169IPR000571Zinc finger, CCCH-type
SMARTSM003560.824168IPR000571Zinc finger, CCCH-type
SMARTSM003561.7E-486113IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.85986114IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-688113IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.065153181IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.63E-6154180IPR000571Zinc finger, CCCH-type
SMARTSM003561.3E-4155180IPR000571Zinc finger, CCCH-type
PfamPF006425.4E-8156179IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.9E-5156178IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:1.25.40.1801.3E-27364522IPR016021MIF4G-like domain
SuperFamilySSF483711.21E-27364523IPR016024Armadillo-type fold
SMARTSM005438.8E-4368620IPR003890MIF4G-like, type 3
PfamPF028544.0E-18369519IPR003890MIF4G-like, type 3
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003723Molecular FunctionRNA binding
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 694 aa     Download sequence    Send to blast
MPQDDDWFWG PTPVVVGETT SKPQPPVAGK TKKVEEQHPR RPGEPDCSYY VKFGSGKFGI  60
SCVYNHPDPR RQHGADDKKP EQFPRRPGEP DCSYYVKFGS CKFGMNCRFN HPPRMPVPPQ  120
QEYFSGNACH CHHSEGKSKV KQVKLNVLGL PLRAGTGLCS YYMNRGICKF GTNCKFDHPD  180
PGSDHEKWVV SSNANQVSSQ VNIYSVLDRG ESNERTVTSE EVHQTRDQLL QLGQNVDVPK  240
DILKCCQDIN VELNGEEKIW GFGAEKDHVQ TPSYKRFDAT DSRDWHSQSA QTHWEQKFWD  300
NFSEAKEPYA LGWKQEKFNK HDQSSFHFDS KDQWLKYRKC TPWKSTFVKA EVPLSIQRGI  360
ISGKDEVLKT LKSTLNTFTP KMFDLQKGQL IETRITSADI LKDVINLIFE KVVAEPAFYS  420
TYAQICTYLN QNLTPFPPED CGEEITFKQA LSSKCQEIFE SARTVRAEID KLIGQDREME  480
QRDKERVVKL ETLANIHFIR ALLKKKLITN KIIDHIVQAV MECGRFRFES LGKVDLLNII  540
FEGMLDSDSA GAESNICVNA MIGGNKSSIA ENDVEMTCKN VNRQNEEAIL QKSYNEVPNN  600
SMDPQKNYAD GAFSYLVGNE KPTNFESSVR ISRAGCSISE IMELVVDAGA VEGSDEHFIA  660
TLLFIKPEYR EIFLTLDTRQ GRLGWLKRMY KVKE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4iul_A3e-1136552220182Eukaryotic translation initiation factor 4 gamma 2
4iul_B3e-1136552220182Eukaryotic translation initiation factor 4 gamma 2
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA06G0137900.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1015100.0AK101510.1 Oryza sativa Japonica Group cDNA clone:J033045L14, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015641849.10.0zinc finger CCCH domain-containing protein 43
RefseqXP_025882269.10.0zinc finger CCCH domain-containing protein 43
SwissprotQ5Z5Q30.0C3H43_ORYSJ; Zinc finger CCCH domain-containing protein 43
TrEMBLI1Q2L60.0I1Q2L6_ORYGL; Uncharacterized protein
STRINGORGLA06G0137900.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP143301322
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02830.12e-31zinc finger protein 1
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]