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.010G228700.1.p
Common NameSb10g027200, SORBIDRAFT_10g027200
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: 646aa    MW: 70452.4 Da    PI: 6.5862
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.010G228700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH185e-06115134525
                           --SGGGGTS--TTTTT-SS-S CS
               zf-CCCH   5 lCrffartGtCkyGdrCkFaH 25 
                           +C+ +   G+C+ G++C++ H
  Sobic.010G228700.1.p 115 ECNMYKM-GFCPNGPNCRYKH 134
                           6666666.************* PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003563.6E-55682IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.9575683IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.7E-55783IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.76E-65781IPR000571Zinc finger, CCCH-type
SMARTSM003560.0184110IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.59684109IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.831110137IPR000571Zinc finger, CCCH-type
SMARTSM003560.0026112136IPR000571Zinc finger, CCCH-type
PROSITE profilePS5088257.069245380IPR007275YTH domain
PfamPF041461.0E-43245379IPR007275YTH domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006979Biological Processresponse to oxidative stress
GO:0034052Biological Processpositive regulation of plant-type hypersensitive response
GO:1900363Biological Processregulation of mRNA polyadenylation
GO:2000031Biological Processregulation of salicylic acid mediated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003723Molecular FunctionRNA binding
GO:0004521Molecular Functionendoribonuclease activity
GO:0005516Molecular Functioncalmodulin binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 646 aa     Download sequence    Send to blast
MDDGDGGLSF DFEGGLDSVP AAGGGGPVPS STDPGAGGGG GGDGPGMHGR GRGRGSYRQT  60
VCRHWLRGLC MKGEACGFLH QFDKARMPVC RFFRDFGECR EPDCAYKHSY DDVKECNMYK  120
MGFCPNGPNC RYKHIKLPGP PPSVEEVLQK ILQMRSFNRY GQNRNNNYNQ QGERPQHPQG  180
SGMPNQNSAE NATAAAPPAG GQQAQTMNQQ PPQQQQKPNT NDQAQGVSNG QQATRIATPL  240
PQGPSRYFIV KSCNRENLEI SVQQGIWATQ RSNEAKLNEA FESTENVILI FSINRTRNFQ  300
GCAKMTSRIG GYIGGGNWKS AHGTAHYGRN FSMQWLKLCE LSFQKTHHLR NPYNDNLPVK  360
ISRDCQELEP FIGEQLASLL YLEPDSELTA MLIAAEAKRE EEKAKGVSAD EAADNQDIVL  420
FDDNEEDEEE ESEEEEEANG QESQGRGRGR GMMWPPQMPM MRGPMMAGRG FPPNMMGDGF  480
GFGGGFGMPD PFGMPRGFPP FVGPRFPGDF ARGPMPGMGF PGRPPQPFPL GLDMMMGPGR  540
GPLMGGMGMG GPGRPNRPMG MAPFMPPPPP NNRAAKREQR RPGGDRGDRF ETVSSDQGNR  600
GHDNTGNSGA DGARAQSGDR YGRSALRDDD SESEEEAAPR RSRKR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zuu_A1e-99232408418030-kDa cleavage and polyadenylation specificity factor 30
5zuu_B1e-99232408418030-kDa cleavage and polyadenylation specificity factor 30
5zuu_C1e-99232408418030-kDa cleavage and polyadenylation specificity factor 30
5zuu_D1e-99232408418030-kDa cleavage and polyadenylation specificity factor 30
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.010G228700.1.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
GenBankEU9626790.0EU962679.1 Zea mays clone 244673 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002437445.10.0zinc finger CCCH domain-containing protein 45
SwissprotQ0DA500.0C3H45_ORYSJ; Zinc finger CCCH domain-containing protein 45
TrEMBLC5Z7U30.0C5Z7U3_SORBI; Uncharacterized protein
STRINGSb10g027200.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP59892428
Representative plantOGRP499234