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 XP_013635862.1
Organism
Brassica oleracea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C3H
Protein Properties Length: 781aa    MW: 86086.4 Da    PI: 5.3666
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013635862.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH35.31.9e-116591127
                    --S---SGGGGTS--TTTTT-SS-SSS CS
         zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                    +kt+lC++f+r G C++Gd Ck+aHg+
  XP_013635862.1 65 FKTSLCSYFRRQGSCSHGDACKYAHGE 91
                    69***********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.102.5E-146096IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.85E-96396IPR000571Zinc finger, CCCH-type
SMARTSM003562.7E-76491IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.9486492IPR000571Zinc finger, CCCH-type
PfamPF006423.2E-96591IPR000571Zinc finger, CCCH-type
CDDcd005906.32E-4154219No hitNo description
SuperFamilySSF549281.65E-5157225IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3301.2E-5157219IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5168747.692245781IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533352.06E-45248273IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533352.06E-45305444IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533352.06E-45489601IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene3DG3DSA:3.40.50.1501.9E-65495601IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF138472.5E-10545612IPR025714Methyltransferase domain
CDDcd024402.15E-6547601No hitNo description
Gene3DG3DSA:3.40.50.1501.9E-65660720IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PfamPF059587.6E-8668716IPR010280(Uracil-5)-methyltransferase family
SuperFamilySSF533352.06E-45668721IPR029063S-adenosyl-L-methionine-dependent methyltransferase
PROSITE patternPS012300676708IPR030390RNA methyltransferase TrmA, active site
Gene3DG3DSA:3.40.50.1501.9E-65756781IPR029063S-adenosyl-L-methionine-dependent methyltransferase
SuperFamilySSF533352.06E-45765779IPR029063S-adenosyl-L-methionine-dependent methyltransferase
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
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: 781 aa     Download sequence    Send to blast
MTSSSVDELP SAAETLTYQI PSDTTPIDPI PSSNDVEAVG EKRKRDDDDD EKTTNLESST  60
PSPWFKTSLC SYFRRQGSCS HGDACKYAHG EKELRQKPDN TWDPTSERGK KVKMMSEKSA  120
EEEEEVGDVM FTEEMMDDND GEEGGVHDLS LSKCLVHLPT KWQSDDIKTF LREQGVEYKF  180
AKKRRGMMVG FLTFENAEQL KNGVEVLEGK NVNNKSLKIA NVLPRTFDKN GAKNPAAKLK  240
SAREAVTPLA DLSYADQLEQ KKASISQMLK KLTRNARKAC PNGKSLPEWV LQSREIGGLS  300
CKLEGIIESP LVNGYRNKCE FSTGYSVEGK LTVGFMLGNF SAGVTAVEEA VNCPNISKLA  360
CRYASIFQSF LEKSRLPVWN RFKSCGFWRQ LTVREGSKPG VVSSDEDADS RIAEVMLMVQ  420
VCSTDTDEAE VATEFEQMAK AFAEGARASS PPLPLTVLVV QDHVGISNVA PPDCPLRLLP  480
IPVSDNGTHQ DQSTNVLTEA RIHDHINNLR FSISPTAFFQ VNTCAAEKLY SLAGDWADLG  540
PDTLLFDVCC GTGTIGLTLA HRVGMVIGIE MNASAVSDAE RNAKINGISN CKFICSKAED  600
VMSSLLTEYL DVSETEEAKP LSGDLEKQIS SAEEISNSED APPANIQEVQ KTEQKDSSET  660
ERSTKRQFKN VVAIVDPPRP GLHPDVIKAL RTHPRLKTLV YISCNPETLV ANAIELCTPS  720
FEKTGQENKG YRRQSKMGTA ALARHRAKKM PASEPFKPVK AMAVDLFPHT DHCEMVMLLN  780
R
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5xj1_A7e-2123360867371Uncharacterized RNA methyltransferase SP_1029
5xj2_A8e-2123360867371Uncharacterized RNA methyltransferase SP_1029
5xj2_B8e-2123360867371Uncharacterized RNA methyltransferase SP_1029
5xj2_C8e-2123360867371Uncharacterized RNA methyltransferase SP_1029
5xj2_D8e-2123360867371Uncharacterized RNA methyltransferase SP_1029
5zq0_A8e-2123360868372Uncharacterized RNA methyltransferase SP_1029
5zq1_A8e-2123360867371Uncharacterized RNA methyltransferase SP_1029
5zq8_A8e-2123360867371Uncharacterized RNA methyltransferase SP_1029
5zq8_B8e-2123360867371Uncharacterized RNA methyltransferase SP_1029
5zth_A8e-2123360868372Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013635862.1
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_013635862.10.0PREDICTED: zinc finger CCCH domain-containing protein 24
SwissprotQ8L7S30.0C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBLA0A3N6Q9Z50.0A0A3N6Q9Z5_BRACR; Uncharacterized protein
STRINGBra011947.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM120031516
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]