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.004G259300.2.p
Common NameSb04g029760, SORBIDRAFT_04g029760
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: 372aa    MW: 41482.5 Da    PI: 7.1148
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.004G259300.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH17.38.8e-064056522
                          --SGGGGTS--TTTTT-S CS
               zf-CCCH  5 lCrffartGtCkyGdrCk 22
                           C f+++ G C++G+rC+
  Sobic.004G259300.2.p 40 VCTFYQK-GACSFGSRCR 56
                          5******.*********7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.28833IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.02E-6832IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.8211234IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.4133562IPR000571Zinc finger, CCCH-type
SMARTSM003560.00583761IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.502150177IPR000571Zinc finger, CCCH-type
SMARTSM003566.8152176IPR000571Zinc finger, CCCH-type
SuperFamilySSF578503.81E-14206283No hitNo description
Gene3DG3DSA:3.30.40.103.8E-10212278IPR013083Zinc finger, RING/FYVE/PHD-type
CDDcd001620.00156218278No hitNo description
PfamPF136394.2E-8218277IPR001841Zinc finger, RING-type
SMARTSM001849.3E-7219276IPR001841Zinc finger, RING-type
PROSITE profilePS5008912.297219277IPR001841Zinc finger, RING-type
PROSITE patternPS005180243252IPR017907Zinc finger, RING-type, conserved site
PROSITE profilePS5010314.314306335IPR000571Zinc finger, CCCH-type
SMARTSM003560.028306334IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 372 aa     Download sequence    Send to blast
MFISSLQKMG VPCKFFLHGA CFKGDYCEFS HDCNDQPDNV CTFYQKGACS FGSRCRNEHV  60
EAHRDCPQPA TTAARASPNS SQLVASSRDP RCSGCQTDMC DQTQQICKST TTLSAHQPAW  120
AVDYHDNDTP DDTTSWPSYQ AVQNQTSQHP AHLSNCSSAA VGTCPYGKDC SQMHGDLCAF  180
CERQSLNPNQ PDERGVHVKL CKKNNRYLEA MRKSEDIECG VCLDRVLSKP TAAERRFGLL  240
SDCDHSFCIS CIRNWRSTSP TSGMDVNSTL RACPICRKLS YYVVPSITWY SSKEEKQEIV  300
EGYKAKLRSI DCKHFDFGKG TCPFGSSCFY KHAYDDGRLE DALLNHHDAE DASAAIARLM  360
RLSYLLTRVH V*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.130710.0ovary| pollen
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in dry seeds. Increased expression throughout imbibition and germination and when radicle and shoots are emerging. Up-regulated during cell differentiation. {ECO:0000269|PubMed:17870591}.
UniprotTISSUE SPECIFICITY: Expressed in primary roots and leaves. Detected in vascular bundle tissues. {ECO:0000269|PubMed:17870591}.
Functional Description ? help Back to Top
Source Description
UniProtE3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.004G259300.2.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
GenBankBT0545500.0BT054550.1 Zea mays full-length cDNA clone ZM_BFc0152O03 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002452642.10.0E3 ubiquitin-protein ligase makorin
SwissprotQ5ZA071e-159C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLA0A1Z5RP220.0A0A1Z5RP22_SORBI; Uncharacterized protein
STRINGSb04g029760.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP53263356
Representative plantOGRP40671523
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.21e-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]
  2. Sahi VP, et al.
    A molecular insight into Darwin's "plant brain hypothesis" through expression pattern study of the MKRN gene in plant embryo compared with mouse embryo.
    Plant Signal Behav, 2012. 7(3): p. 375-81
    [PMID:22499205]
  3. Wadekar HB,Sahi VP,Morita EH,Abe S
    MKRN expression pattern during embryonic and post-embryonic organogenesis in rice (Oryza sativa L. var. Nipponbare).
    Planta, 2013. 237(4): p. 1083-95
    [PMID:23262670]