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 28952.m000016
Common NameLOC8261817, RCOM_0360090
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family C2H2
Protein Properties Length: 442aa    MW: 49605.7 Da    PI: 8.8977
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
28952.m000016genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.65.2e-065678123
                   EEETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                   y+C++C++ F r  nL+ H r+H
  28952.m000016 56 YVCEICNQGFQRDQNLQMHRRRH 78
                   9*********************9 PP
2zf-C2H217.31.3e-05133155123
                    EEETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                    ++C++C+k +  +s++k H++t+
  28952.m000016 133 WVCEKCSKAYAVQSDYKAHLKTC 155
                    58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.93E-55578No hitNo description
Gene3DG3DSA:3.30.160.601.8E-55578IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00525678IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.975678IPR007087Zinc finger, C2H2
PROSITE patternPS0002805878IPR007087Zinc finger, C2H2
PROSITE patternPS01359058138IPR019786Zinc finger, PHD-type, conserved site
SMARTSM0035521097127IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.608.0E-5124154IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.93E-5128153No hitNo description
SMARTSM0035552133160IPR015880Zinc finger, C2H2-like
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: 442 aa     Download sequence    Send to blast
MLANNSSSSV PSSEPFSCLE NGSNNNKRKR RPAGTPDPDA EVVSLSPKTL LESDRYVCEI  60
CNQGFQRDQN LQMHRRRHKV PWKLLKRETP VVRKRVFVCP EPSCLHHDPC HALGDLVGIK  120
KHFRRKHSNH KQWVCEKCSK AYAVQSDYKA HLKTCGTRGH SCDCGRVFSR VESFIEHQDA  180
CNMGRLRPDR QSQSTLQPAA CLSRTASSPS PSTDNNFSTA PWPPLLIARP TSTDAIFLVS  240
PTTIDKKDYN LDLQLSSTSN PLVLSISPKR DDNHSTQLQL SIGSSDLSEK NESHIASTNK  300
DAGKLSPRES NNSEKPESAA LRLKEQAREQ LRLAMAEKAY AEEARQRAKR QIELAEQEFA  360
NAKRIRQQAQ AEFDKAQALR EHAMKQINST LLQVTCHACK QQFQTRTPPD ENSLVLSHMS  420
SAVTEGEVEN DNLTDLAKTS KF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-18131182556Zinc finger protein JACKDAW
5b3h_F3e-18131182556Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in inflorescence stems gravitropism, probably by regulating starch accumulation in amyloplasts of graviperceptive cells. Required for stem circumnutation movements. Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Acts cooperatively with IDD16 to control silique and branche orientation (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269|PubMed:16813575, ECO:0000269|PubMed:18259878, ECO:0000269|PubMed:24039602, ECO:0000269|PubMed:9210330}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap28952.m000016
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
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_002534293.10.0protein SHOOT GRAVITROPISM 5
SwissprotF4IPE31e-155IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLB9T7S40.0B9T7S4_RICCO; Nucleic acid binding protein, putative
STRINGXP_002534293.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF17693289
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.11e-157C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Kim JY,Ryu JY,Baek K,Park CM
    High temperature attenuates the gravitropism of inflorescence stems by inducing SHOOT GRAVITROPISM 5 alternative splicing in Arabidopsis.
    New Phytol., 2016. 209(1): p. 265-79
    [PMID:26256266]
  3. Ryu JY,Kim JY,Park CM
    Adaptive thermal control of stem gravitropism through alternative RNA splicing in Arabidopsis.
    Plant Signal Behav, 2015. 10(11): p. e1093715
    [PMID:26452406]
  4. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]
  5. Shi H, et al.
    Zinc finger of Arabidopsis thaliana 6 is involved in melatonin-mediated auxin signaling through interacting INDETERMINATE DOMAIN15 and INDOLE-3-ACETIC ACID 17.
    J. Pineal Res., 2018. 65(2): p. e12494
    [PMID:29607541]