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 OGLUM04G00160.1
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: 865aa    MW: 93990.7 Da    PI: 5.174
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM04G00160.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH23.31.1e-075283127
                     --S---SGGGGTS.....--TTTTT-SS-SSS CS
          zf-CCCH  1 yktelCrffartG.....tCkyGdrCkFaHgp 27
                     +kt+lC+ff+r        C++Gd+C++aH++
  OGLUM04G00160.1 52 WKTSLCSFFRRRAassadGCSHGDSCRYAHSE 83
                     8**********88*****************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.106.6E-124889IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.83E-64988IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.3385184IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-55283IPR000571Zinc finger, CCCH-type
SuperFamilySSF549289.98E-5130214IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3301.4E-5130216IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168743.666260865IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533352.99E-49262288IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533352.99E-49320423IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533352.99E-49482609IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1501.3E-62505609IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138472.0E-9549611IPR025714Methyltransferase domain
CDDcd024402.17E-7555609No hitNo description
Gene3DG3DSA:3.40.50.1501.3E-62748805IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533352.99E-49753865IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059581.0E-6758801IPR010280(Uracil-5)-methyltransferase family
PROSITE patternPS012300761793IPR030390RNA methyltransferase TrmA, active site
Gene3DG3DSA:3.40.50.1501.3E-62840865IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0001510Biological ProcessRNA methylation
GO:0006396Biological ProcessRNA processing
GO:0000166Molecular Functionnucleotide binding
GO:0008173Molecular FunctionRNA methyltransferase activity
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 865 aa     Download sequence    Send to blast
MEMEMKDNKA PSPPPPMESD IAGEKRKRED DASSSAVLDA ANNTGGAQHP MWKTSLCSFF  60
RRRAASSADG CSHGDSCRYA HSEEELRPRP DGTWDPTSDR AKKLRKVAAD EVEEEVVTID  120
NKALDKCLVG LPRGWANDRL KTFLQDKART NYSSILPPAL LLGISYATAK KKKGMTVGFV  180
TFENIEQLKN AIEVLTENQS GGKEIKIADA NRRSHQKLHT EKPVSDNGVA TENGTSVDVP  240
PGETSAPEAA ISNKKSVRDA VTPLAHMSYN DQLEHKKNSV AQILKRLTRN ARKACPTGIP  300
LPDWVFKSKE IGGLPCKLEG ILESPVINGY RNKCEFSVGF SLEGKKTVGF MLGNFREGVT  360
AVEEPVDCPN VSEISCKYAL MFQDFLQSSS LPVWNRVDNC GFWRQFTVRE GRCRAQAVAQ  420
NAETQISEVM LIVQVCSTGV DDALMKDEFD KLTVALQQGA ATCSPPLPLT TIVVQDHKGI  480
SNAAPADCPS IPLLVPKVDQ SEGTVDKTRI HDHIGNLWFS ISPTAFFQVN TLAAERLYTL  540
AGDWANLNSG TLLFDVCCGT GTIGLTLAHR VGMVVGIEMN ESAVSDAERN ALINGVSNCR  600
FVCGKAEDVM GSLLTEYLGS PQQDIPVSEG AVSGTVKDEE VIDGSKNSSE NLDSSMQKND  660
NGESQQLGDA PADSSSSAID EIKGNSNDRV GNGLEGSHDE YNEVAGEDIH GEASLINESV  720
DLKVSDCLED RKTSDDGSSI SNNDVTAATA CQFEDIVAIV DPPRVGLHPT VIKALRTHPR  780
IRRLVYISCN PDSLVANAIE LCTPSSEKQE KNKGNRGWRT MSSAGLARQR TKSMPNSEPF  840
VPKRAMAVDL FPHTSHCEMV MLFER
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj1_A4e-16519616274371Uncharacterized RNA methyltransferase SP_1029
5xj2_A4e-16519616274371Uncharacterized RNA methyltransferase SP_1029
5xj2_B4e-16519616274371Uncharacterized RNA methyltransferase SP_1029
5xj2_C4e-16519616274371Uncharacterized RNA methyltransferase SP_1029
5xj2_D4e-16519616274371Uncharacterized RNA methyltransferase SP_1029
5zq0_A4e-16519616275372Uncharacterized RNA methyltransferase SP_1029
5zq1_A4e-16519616274371Uncharacterized RNA methyltransferase SP_1029
5zq8_A4e-16519616274371Uncharacterized RNA methyltransferase SP_1029
5zq8_B4e-16519616274371Uncharacterized RNA methyltransferase SP_1029
5zth_A4e-16519616275372Uncharacterized RNA methyltransferase SP_1029
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
GenBankAK1201560.0AK120156.1 Oryza sativa Japonica Group cDNA clone:J013030B09, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015636996.10.0zinc finger CCCH domain-containing protein 24 isoform X1
SwissprotQ8L7S30.0C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBLA0A0D9ZG980.0A0A0D9ZG98_9ORYZ; Uncharacterized protein
STRINGOGLUM04G00160.10.0(Oryza glumipatula)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP84933131
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G28450.10.0C3H family protein
Publications ? help Back to Top
  1. Wang Y, et al.
    Identification of tRNA nucleoside modification genes critical for stress response and development in rice and Arabidopsis.
    BMC Plant Biol., 2017. 17(1): p. 261
    [PMID:29268705]