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 28076.m000420
Common NameLOC8284007, RCOM_0154700
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family C3H
Protein Properties Length: 863aa    MW: 95042 Da    PI: 5.7319
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
28076.m000420genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH27.65e-0982109127
                    --S---SGGGGTS.--TTTTT-SS-SSS CS
        zf-CCCH   1 yktelCrffartG.tCkyGdrCkFaHgp 27 
                    ykt+lC++f+r    C++G+ Ck+aHg+
  28076.m000420  82 YKTSLCSYFRRHSaSCSHGSECKYAHGE 109
                    9**********99*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.101.9E-1276115IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.48E-678114IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.24981110IPR000571Zinc finger, CCCH-type
PfamPF006429.0E-782109IPR000571Zinc finger, CCCH-type
CDDcd005904.19E-6178243No hitNo description
Gene3DG3DSA:3.30.70.3301.5E-6181243IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549281.22E-6181253IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168748.496306863IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533351.5E-50308334IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533351.5E-50366469IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533351.5E-50528660IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1501.1E-65558660IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138478.8E-9604662IPR025714Methyltransferase domain
CDDcd024407.60E-6606658No hitNo description
Gene3DG3DSA:3.40.50.1501.1E-65747802IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533351.5E-50750803IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059582.3E-7752798IPR010280(Uracil-5)-methyltransferase family
PROSITE patternPS012300758790IPR030390RNA methyltransferase TrmA, active site
Gene3DG3DSA:3.40.50.1501.1E-65838863IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533351.5E-50847863IPR029063S-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
MASSPPINKV SPTETLNPSS ITEISKPMSP QSPETTIAAT ADDNNNNGNE SNNQGEKRKR  60
EETEEQQSET EEKSELSHNP YYKTSLCSYF RRHSASCSHG SECKYAHGEE ELRQRPDNTW  120
DPTSERAKKA IKLEKNSDNC DVKEEKEEIM MTEMIGDDDG DGAGGEGGGC LDPELSKCLV  180
HLPRKWNSDN FKNFLNEQGV LFKWAKKKKG MVVGFVTFET ADQLKKASEG LEGKSVGNKK  240
VKVADVIPRS YDKNIKSAMA LPHNNSQKME SLLDGENADV IEDGDRSNGA SKFDSSTSKA  300
KSACEVVTPL AHMSYEDQLE HKKNSIMQML KKLTRNARKA CPNGVSLPEW VLKSREIGGL  360
ACSLEGILES PLVNGYRNKC EFSVGYSLQG KPIVGFMLGN FRDGVTAVEE PMDCPNVSSI  420
ASKYALIFQE FLQESGLPIW NRFKNTGFWR QLTVREGRLP EKDADIKGDV NMSEIMLIVQ  480
VCLAGFDDEL INSELWRLAH AFTTGAAANS PPLPLKVLVL QDHQGISNVA PADAPLRILP  540
LPNVESSSEA EATKNVVEAR IHDHINNLRF SISPTAFFQV NTLAAERLYS LAGDWAGLGP  600
DTLLFDICCG TGTIGLTLAH RVGMVVGIEM NASAVSDAHR NAEINGIRNC RFICAKAESV  660
MASLLKEYLN EPQKQDEVSY AGETSDKDLT ACEDKDTPVG NVVDTTENSS HELGNGKSDS  720
RCSEDGEQEH QIHPQDSCAS KDGTYSVPQF KNVVAIVDPP RNGLHPTVIK ALRTHSHLRR  780
LVYISCNPET LLANAIELCT PSPDKIEKGK KNNRGWRNMS SAGLARHRAQ SMPISEPFRP  840
VKAMAVDLFP HTTHCEMVML LER
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj1_A8e-17570667274371Uncharacterized RNA methyltransferase SP_1029
5xj2_A8e-17570667274371Uncharacterized RNA methyltransferase SP_1029
5xj2_B8e-17570667274371Uncharacterized RNA methyltransferase SP_1029
5xj2_C8e-17570667274371Uncharacterized RNA methyltransferase SP_1029
5xj2_D8e-17570667274371Uncharacterized RNA methyltransferase SP_1029
5zq0_A8e-17570667275372Uncharacterized RNA methyltransferase SP_1029
5zq1_A8e-17570667274371Uncharacterized RNA methyltransferase SP_1029
5zq8_A8e-17570667274371Uncharacterized RNA methyltransferase SP_1029
5zq8_B8e-17570667274371Uncharacterized RNA methyltransferase SP_1029
5zth_A8e-17570667275372Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMap28076.m000420
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002530289.10.0zinc finger CCCH domain-containing protein 24 isoform X1
SwissprotQ8L7S30.0C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBLB9SWC00.0B9SWC0_RICCO; RNA m5u methyltransferase, putative
STRINGXP_002530289.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF88541720
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]