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.004G174400.1.p
Common NameSb04g022470, SORBIDRAFT_04g022470
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 C2H2
Protein Properties Length: 349aa    MW: 39591.3 Da    PI: 7.9411
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.004G174400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H212.60.00046486323
                          ET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2  3 Cp..dCgksFsrksnLkrHirtH 23
                          C+   Cgk+F +   L++H  +H
  Sobic.004G174400.1.p 64 CSyeGCGKTFFDAGALRKHAHVH 86
                          77779**************9887 PP
2zf-C2H215.16.5e-0591115123
                           EEET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                           y C+  +Cgk F ++s LkrH   H
  Sobic.004G174400.1.p  91 YICHyeNCGKKFLDSSKLKRHFLIH 115
                           89*******************8877 PP
3zf-C2H221.84.8e-07121145123
                           EEET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                           ++Cp   Cgk Fs   nLk H++tH
  Sobic.004G174400.1.p 121 FVCPheGCGKAFSLDFNLKAHMKTH 145
                           89**********************9 PP
4zf-C2H218.74.6e-06151176123
                           EEET..TTTEEESSHHHHHHHHHH.T CS
               zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                           ++C+   Cg++F++ s L+ Hir  H
  Sobic.004G174400.1.p 151 HVCQypECGRRFTQESKLRAHIRQqH 176
                           689999*****************888 PP
5zf-C2H215.54.8e-05220245123
                           EEET..TTTEEESSHHHHHHHHHH.T CS
               zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                           y+Cp   C+k + + + L+ H+++ H
  Sobic.004G174400.1.p 220 YVCPydGCDKAYIHEYKLNLHLKKeH 245
                           9**********************999 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.602.7E-135888IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00326286IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.7626291IPR007087Zinc finger, C2H2
SuperFamilySSF576671.01E-66387No hitNo description
PROSITE patternPS0002806486IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.3E-1489111IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015714.06691120IPR007087Zinc finger, C2H2
SMARTSM003550.01391115IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028093115IPR007087Zinc finger, C2H2
SuperFamilySSF576673.1E-14102154No hitNo description
Gene3DG3DSA:3.30.160.603.9E-20112148IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.321121150IPR007087Zinc finger, C2H2
SMARTSM003554.3E-4121145IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280123145IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.1E-8150173IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0063151176IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.24151176IPR007087Zinc finger, C2H2
PROSITE patternPS000280153176IPR007087Zinc finger, C2H2
SuperFamilySSF576674.33E-7153176No hitNo description
Gene3DG3DSA:3.30.160.603.2E-9212242IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.33E-7215242No hitNo description
SMARTSM003550.0024220245IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.891220250IPR007087Zinc finger, C2H2
PROSITE patternPS000280222245IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 349 aa     Download sequence    Send to blast
MQVARRRYRW VKEWVPQDLV VAGGPCTLYK WVREDRLAAL KAKDKEQGAE SATPEPNSEV  60
LFLCSYEGCG KTFFDAGALR KHAHVHGERQ YICHYENCGK KFLDSSKLKR HFLIHTGEKN  120
FVCPHEGCGK AFSLDFNLKA HMKTHSADNY HVCQYPECGR RFTQESKLRA HIRQQHEKAV  180
GLQNPGASTT NHIVIGDQHQ PPKPAKVSAT PPAPSAERPY VCPYDGCDKA YIHEYKLNLH  240
LKKEHPNHYQ DGGPRGAAPS KRNISKSSHR SKPDVTPRMP TAKIPKHKGG YVAPLPAVNL  300
PEEQQWPRKG MYEVDSEETE EEGDNNVEDR WNYNRAVSSD DEETEDEE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ubd_C5e-34641728114PROTEIN (YY1 ZINC FINGER DOMAIN)
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Rapidly induced following seed germination, especially in tender cotyledons. {ECO:0000269|PubMed:26961720}.
UniprotTISSUE SPECIFICITY: Mostly expressed in flowers, to a lower extent in seedlings, stems and leaves, and, at low levels, in roots and senescent leaves. {ECO:0000269|PubMed:26961720}.
Functional Description ? help Back to Top
Source Description
UniProtDual-function transcription factor with both repression and activation activities. Binds to 5'-CCATATT-3' motif in target gene promoters (e.g. ABR1) (PubMed:26961720). Binds also to G-rich DNA motif 5'-GGGGGCAGTGG-3' (PubMed:22508367). Regulates the expression of genes involved in diverse cellular pathways, including glucose metabolism, photosynthesis, phototropism and stress response (e.g. salt, drought and osmotic stress) (PubMed:22508367, PubMed:26961720). Regulates plant immunity, especially during necrotrophic fungal infection (e.g. B.cinerea) (PubMed:24451981). Binds to ABR1 promoter and promotes its expression, thus negatively regulating the abscisic acid (ABA) signaling pathway. Represses ABA- and salt-responsive genes expression (PubMed:26961720). {ECO:0000269|PubMed:22508367, ECO:0000269|PubMed:24451981, ECO:0000269|PubMed:26961720}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.004G174400.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by abscisic acid (ABA) in an ABI1- and ABI4-dependent manner. Stimulated by stress conditions including high salt, osmotic stress (e.g. mannitol) and dehydration. May be induced by ABI4 but repressed by ABR1. Repressed by darkness but induced by light. {ECO:0000269|PubMed:26961720}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0355350.0BT035535.1 Zea mays full-length cDNA clone ZM_BFb0068J12 mRNA, complete cds.
GenBankEU9668930.0EU966893.1 Zea mays clone 297982 transcription repressor TRM protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002452252.10.0zinc finger transcription factor YY1 isoform X1
SwissprotQ2V3L31e-101YY1_ARATH; Zinc finger transcription factor YY1
TrEMBLC5XU700.0C5XU70_SORBI; Uncharacterized protein
STRINGSb04g022470.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20943899
Representative plantOGRP38561626
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G06634.11e-103C2H2 family protein
Publications ? help Back to Top
  1. Kumekawa N,Hosouchi T,Tsuruoka H,Kotani H
    The size and sequence organization of the centromeric region of Arabidopsis thaliana chromosome 4.
    DNA Res., 2001. 8(6): p. 285-90
    [PMID:11853315]
  2. Li T,Wu XY,Li H,Song JH,Liu JY
    A Dual-Function Transcription Factor, AtYY1, Is a Novel Negative Regulator of the Arabidopsis ABA Response Network.
    Mol Plant, 2016. 9(5): p. 650-661
    [PMID:26961720]
  3. Wu XY,Li T
    A Casein Kinase II Phosphorylation Site in AtYY1 Affects Its Activity, Stability, and Function in the ABA Response.
    Front Plant Sci, 2017. 8: p. 323
    [PMID:28348572]