PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Neem_3732_f_1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family C2H2
Protein Properties Length: 394aa    MW: 44233.5 Da    PI: 8.5454
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_3732_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.79.6e-066486123
                   EEETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                   y C++C++ F r  nL+ H r+H
  Neem_3732_f_1 64 YICEICNQGFQRDQNLQMHRRRH 86
                   89********************9 PP

2zf-C2H216.81.9e-05123145123
                    EEETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                    ++C++C+k +  +s++k H++t+
  Neem_3732_f_1 123 WVCEKCNKGYAVQSDYKAHLKTC 145
                    58*******************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576675.18E-56187No hitNo description
Gene3DG3DSA:3.30.160.601.1E-56386IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF128740.026482No hitNo description
PROSITE profilePS5015710.8666486IPR007087Zinc finger, C2H2
SMARTSM003550.00656486IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806686IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.2E-4109144IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576678.6E-5112144No hitNo description
SMARTSM0035546123150IPR015880Zinc 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: 394 aa     Download sequence    Send to blast
MLENNSNNNT TASHGAPSSS SDPFTSSENN GVTNKRKRKP AGTPDPDAEV VSLSPRTLLE  60
SDRYICEICN QGFQRDQNLQ MHRRRHKVPW KLLKRETQEV KKREILSVLK KHFRRKHSNH  120
KQWVCEKCNK GYAVQSDYKA HLKTCGTRGH SCDCGRVFSR VESFIEHQDA CTMRRVQPEL  180
QTMQPACSSR TASSTSPSSD ANFSIPPPAV LQGLPMLKPD ETVFLFSGRN NQSTSDRQEH  240
NLELQLLPSS NIDATPNPHE NYATHLKLSI GSSDRGEKNE LEKLNADSSR EKNTPMAEKA  300
YAEEARQQAK RQMEMAELEF ANAKRIRQQA QGELEKAQVL KEQATKKISA TVMQITCQAC  360
KQQFQASTSM APPCDETSLA MSYMSSATTE GEGE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C9e-18121171555Zinc finger protein JACKDAW
5b3h_F9e-18121171555Zinc 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}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006448065.10.0protein SHOOT GRAVITROPISM 5
SwissprotF4IPE31e-141IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLV4UAY20.0V4UAY2_9ROSI; Uncharacterized protein
STRINGXP_006448065.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM69328131
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68130.11e-136indeterminate(ID)-domain 14
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 CuAO╬ 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]