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 ORGLA04G0002000.1
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: 853aa    MW: 92783.4 Da    PI: 5.1234
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA04G0002000.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH23.41.1e-075283127
                       --S---SGGGGTS.....--TTTTT-SS-SSS CS
            zf-CCCH  1 yktelCrffartG.....tCkyGdrCkFaHgp 27
                       +kt+lC+ff+r        C++Gd+C++aH++
  ORGLA04G0002000.1 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:4.10.1000.106.5E-124889IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.63E-64988IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.3385184IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-55283IPR000571Zinc finger, CCCH-type
CDDcd005903.32E-5127196No hitNo description
SuperFamilySSF549283.98E-6130206IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3303.1E-8130205IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168744.202249853IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533353.54E-49251277IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533353.54E-49309412IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533353.54E-49471598IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1501.3E-62494598IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138472.1E-9538600IPR025714Methyltransferase domain
CDDcd024402.13E-7544598No hitNo description
Gene3DG3DSA:3.40.50.1501.3E-62736793IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533353.54E-49741853IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059581.0E-6746789IPR010280(Uracil-5)-methyltransferase family
PROSITE patternPS012300749781IPR030390RNA methyltransferase TrmA, active site
Gene3DG3DSA:3.40.50.1501.3E-62828853IPR029063S-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: 853 aa     Download sequence    Send to blast
MEMEMEDNKA PSPPSPMESD VAGEKRKRED DASSSAILAA ANNTGGAQHP MWKTSLCSFF  60
RRRAASSADG CSHGDSCRYA HSEEELRPRP DGTWDPTSDR AKKLRKVAAD EVEEEVVTID  120
DKALDKCLVG LPRGWANDRL KTFLQDKMVM QGISYATAKK KKGMTVGFVT FENIEQLKNA  180
IEVLTENQSG GKEIKIADAN RRSHQKLHTE KPVSDNGVTT ENGTSVDVPP GETSAPEAAI  240
SNKKSVRDAV TPLAHMSYND QLEHKKNSVA QILKRLTRNA RKACPTGIPL PDWVFKSKEI  300
GGLPCKLEGI LESPVINGYR NKCEFSVGFS LEGKKRVGFM LGNFREGVTA VEEPVDCPNV  360
SEISCKYALM FQDFLQSSSL PVWNRVDNCG FWRQFTVREG RCRAQAVAQN AETQISEVML  420
IVQVCSTGVD DALMKDEFDK LTVALQQGAA TCSPPLPLTT IVVQDHKGIS NAAPADCPLI  480
PLLVPKVDQS EGTVDKTRIH DHIGNLWFSI SPTAFFQVNT LAAERLYTLA GDWANLNSGT  540
LLFDVCCGTG TIGLTLAHRV GMVVGIEMNE SAVSDAERNA LINGVSNCRF VCGKAEDVMG  600
SLLTEYLGSP QQDIPVSEGA VSGTVKDEEV IDGSKNSGEN LDSSMQKNDN GESQQLGDAP  660
ADSSSSAIDE IKGNSNDRVG NGLEGSHDEY NEVAGEDIHG EASLINESVD LKVSDCLEDR  720
KTSDGSSISN NDVTAATACQ FEDIVAIVDP PRVGLHPTVI KALRTHPRIR RLVYISCNPD  780
SLVANAIELC TPSSEKQEKN KGNRGWRTMS SAGLARQRTK SMPNSEPFVP KRAMAVDLFP  840
HTSHCEMVML FER
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj1_A3e-16508605274371Uncharacterized RNA methyltransferase SP_1029
5xj2_A3e-16508605274371Uncharacterized RNA methyltransferase SP_1029
5xj2_B3e-16508605274371Uncharacterized RNA methyltransferase SP_1029
5xj2_C3e-16508605274371Uncharacterized RNA methyltransferase SP_1029
5xj2_D3e-16508605274371Uncharacterized RNA methyltransferase SP_1029
5zq0_A4e-16508605275372Uncharacterized RNA methyltransferase SP_1029
5zq1_A4e-16508605274371Uncharacterized RNA methyltransferase SP_1029
5zq8_A3e-16508605274371Uncharacterized RNA methyltransferase SP_1029
5zq8_B3e-16508605274371Uncharacterized RNA methyltransferase SP_1029
5zth_A4e-16508605275372Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA04G0002000.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
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
TrEMBLI1PIK10.0I1PIK1_ORYGL; Uncharacterized protein
STRINGORGLA04G0002000.10.0(Oryza glaberrima)
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
AT2G28450.20.0C3H 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]