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.004G113700.1.p
Common NameSb04g009270, SORBIDRAFT_04g009270
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: 331aa    MW: 35998.9 Da    PI: 7.8829
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.004G113700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH38.22.5e-12190215126
                           --S---SGGGGTS--TTTTT-SS-SS CS
               zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                           y   +C+++ +tG+C yGd+CkF+H+
  Sobic.004G113700.1.p 190 YQPDICKDYKETGYCGYGDSCKFMHD 215
                           67789********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902291.83E-9187220IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.878189217IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-7189216IPR000571Zinc finger, CCCH-type
PfamPF006424.5E-10190215IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-12190220IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.40.104.6E-13253308IPR013083Zinc finger, RING/FYVE/PHD-type
PfamPF139202.1E-7266307No hitNo description
SuperFamilySSF578502.31E-12266308No hitNo description
SMARTSM001842.0E-4267304IPR001841Zinc finger, RING-type
CDDcd001628.99E-7267308No hitNo description
PROSITE profilePS5008910.335267304IPR001841Zinc finger, RING-type
PROSITE patternPS005180282291IPR017907Zinc finger, RING-type, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0034247Biological ProcesssnoRNA splicing
GO:0045292Biological ProcessmRNA cis splicing, via spliceosome
GO:0005684Cellular ComponentU2-type spliceosomal complex
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 331 aa     Download sequence    Send to blast
MADGGSGSGE PGAGGGSAPV CSFVRKPPKN MRKRPAAPAG SDDDDDGGGS GALAAARSKK  60
GPPSSAAGKL VFSTADASSE PRRFQYESSR TIQSTDSRAT AVLETETEFD RDSRAIREKQ  120
LKQAEEFLKK NPSSGASASA SGEVYKGIHG YTDYKAGFRR EHTVSSEKAG GSHGPLRAAA  180
HIRVSQRFDY QPDICKDYKE TGYCGYGDSC KFMHDRGDYK SGWQLEREHE EAQKARKRRI  240
AMGGGDGSDD EAADEDEDDE EALPFACYIC RQPFVDPVVT KCKHYFCEHC ALKHHSKNKK  300
CFVCLKPTLG IFNAAQEIRK KMAQDKKQQE *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5z56_M4e-6288322105317RING finger protein 113A
5z58_M4e-6288322105317RING finger protein 113A
6ff4_t4e-6288322105317RING finger protein 113A
6ff7_t4e-6288322105317RING finger protein 113A
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.004G113700.1.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
GenBankBT0415240.0BT041524.1 Zea mays full-length cDNA clone ZM_BFc0009J09 mRNA, complete cds.
GenBankBT0551740.0BT055174.1 Zea mays full-length cDNA clone ZM_BFc0109L02 mRNA, complete cds.
GenBankJX4699760.0JX469976.1 Zea mays subsp. mays clone UT3239 C3H-type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002451887.10.0zinc finger CCCH domain-containing protein 15
SwissprotQ6K4V31e-163C3H15_ORYSJ; Zinc finger CCCH domain-containing protein 15
TrEMBLC5XZF50.0C5XZF5_SORBI; Uncharacterized protein
STRINGSb04g009270.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP80713645
Representative plantOGRP58961720
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G01350.11e-124C3H family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]