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 Sobic.006G002800.1.p
Common NameSb06g000450, SORBIDRAFT_06g000450
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family C3H
Protein Properties Length: 863aa    MW: 93676 Da    PI: 5.0375
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.006G002800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH25.52.3e-086391125
                          --S---SGGGGTS....--TTTTT-SS-S CS
               zf-CCCH  1 yktelCrffartG....tCkyGdrCkFaH 25
                          +kt+lC+ff+r G     C++G++C++aH
  Sobic.006G002800.1.p 63 WKTSLCSFFRRRGagaeGCSHGESCRYAH 91
                          8**************************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.101.6E-125899IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.51E-65998IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.5736294IPR000571Zinc finger, CCCH-type
SMARTSM003560.00156293IPR000571Zinc finger, CCCH-type
PfamPF006424.0E-66391IPR000571Zinc finger, CCCH-type
CDDcd005903.68E-6139204No hitNo description
Gene3DG3DSA:3.30.70.3305.9E-6142204IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549285.35E-6142210IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168742.356256862IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533351.01E-45258284IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533351.01E-45316448IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533351.01E-45479607IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1501.3E-62504607IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138474.9E-9547606IPR025714Methyltransferase domain
CDDcd024401.82E-6553607No hitNo description
Gene3DG3DSA:3.40.50.1501.3E-62745802IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533351.01E-45750862IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059584.1E-7752798IPR010280(Uracil-5)-methyltransferase family
PROSITE patternPS012300758790IPR030390RNA methyltransferase TrmA, active site
Gene3DG3DSA:3.40.50.1501.3E-62837862IPR029063S-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: 863 aa     Download sequence    Send to blast
MEDVLTPPPP PPQQQQQPEL AGEKRKREEG SVDASTEDAP SAPASTGSAE DAAGSGVARH  60
PMWKTSLCSF FRRRGAGAEG CSHGESCRYA HTEEELRPRP DGTWDPTSDR AKKLRKVAAE  120
AQEEAEEEVT VDEQALDKCL VGLPRGWTAD RLKSFLQEQE ISYATAKKKK GMTVGFVTFQ  180
SVEQLTNAVQ VLKENPSGGK EIKIVDANRR SHQKAHVEAP VSNTGTATEN GSSPTNAEET  240
PAPESDSSSK RSARDAVTPL AHMTYIDQLE HKKQSMAQIL KKLTRNARKA CPPAIPLPDW  300
VLKSKEIGGL PCKLEGILES PVVNGYRNKC EFSVGYSLEG KKTVGFMLGN FREGVTAVEE  360
PVNCPNVSEI SCKYAQMFQD FLQSSGFPLW SKIDNSGFWR QLTVREGRCP AEAVVSQNAE  420
SQISEVMLIV QVCSTGVDEA LMKEEFDKLS AALIQGAATC SPPLPLTTIV VQDHKGISNA  480
APTDCPLIPL LVPNGDQLDG TTEDKTRIHD HISNLKFSIS PTAFFQVNTL AAERLYTLAG  540
DWANLNSDTL LFDVCCGTGT IGLTLAHRVG MVVGIEMNES AVSDAHKNAL INGIKNCRFV  600
CSKAEDVMGP LLTEYLGSPQ QQAAASESNS EIDDTNKNED TIDCTNCDGE NIDSSKHRND  660
NGEGQQPMDT SVDYPTCASN EEVDGVNKVV DCSHDEHNVA SGEQNCGEAS LLNDKPIETS  720
SDNSLEQGKA CQDGSSNPND NVLAANACQF KNVVAIVDPP RVGLHPTVIK ALRTHPRIRR  780
LVYISCNPES LVANAIELCT PTSEKQEKNK GNRGWRSMSS AGLARQRTKS MPNSEPFIPK  840
RAMAVDLFPH TPHCEMVMLF ER*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj2_A5e-17508614265371Uncharacterized RNA methyltransferase SP_1029
5xj2_B5e-17508614265371Uncharacterized RNA methyltransferase SP_1029
5xj2_C5e-17508614265371Uncharacterized RNA methyltransferase SP_1029
5xj2_D5e-17508614265371Uncharacterized RNA methyltransferase SP_1029
5zq8_A5e-17508614265371Uncharacterized RNA methyltransferase SP_1029
5zq8_B5e-17508614265371Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.185500.0embryo| leaf
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.006G002800.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ7269830.0KJ726983.1 Zea mays clone pUT3684 C3H transcription factor (C3H10) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002446006.10.0zinc finger CCCH domain-containing protein 24
SwissprotQ8L7S30.0C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBLC5YB950.0C5YB95_SORBI; Uncharacterized protein
STRINGSb06g000450.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP84933131
Representative plantOGRP60881112
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]