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 Gh_A07G0459
Organism
Gossypium hirsutum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family Trihelix
Protein Properties Length: 884aa    MW: 98179.5 Da    PI: 8.6766
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_A07G0459genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix70.14.1e-22792872186
     trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                  +Wt +ev++Li++r e+++r+   k +++lWee+s+ + + g++rsp+qCk++w +l ++y++i+  +k++     + +pyf++++
  Gh_A07G0459 792 KWTSEEVKKLIKMRGELHSRFHVVKGRMALWEEISASLLADGISRSPVQCKSRWASLVQKYEEIRSEKKSH-----KDWPYFEEMN 872
                  7*****************************************************************99996.....68*******7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.103.4E-6876326IPR001279Metallo-beta-lactamase
SuperFamilySSF562818.45E-7377491IPR001279Metallo-beta-lactamase
SMARTSM008499.7E-2889286IPR001279Metallo-beta-lactamase
PfamPF127066.2E-11101236IPR001279Metallo-beta-lactamase
PfamPF075215.2E-6430463IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500909.117785849IPR017877Myb-like domain
SuperFamilySSF466896.12E-6788851IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.7E-7788851IPR009057Homeodomain-like
SMARTSM007171.7E-5789851IPR001005SANT/Myb domain
PfamPF138371.8E-19790874No hitNo description
CDDcd122032.48E-21791856No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 884 aa     Download sequence    Send to blast
MAASTALSLC PYILSRRPTP RKRRFSCSVG STTPIGTRRT NVPRRSSGRL DGARKSMEDS  60
VQRKMEQFYE GTAGPPLRVL PIGGLGEIGM NCMLVGNYDR YILIDAGVMF PDYDELGVQK  120
IIPDTTFIKK WSHKIEAVVI THGHEDHIGA LPWVIPALDP HTPIYASSFT MELIKKRLKE  180
NGIFVPSRLK VFKMRKRFAA GPFEIEPLRV THSIPDCCGL VLRCADGTIL HTGDWKIDES  240
PLDGNIFDRQ FLEDLSKEGV TLMMSDSTNV LSPGRTTSER VVADALLRHI SNAKGRIITT  300
QFASNIHRLG SVKAAADLTG RKLVFVGMSL RTYLDAAWKD GKAPIDPSTL VKAEDIDAYA  360
PKDLIIVTTG SQAEPRAALN LASYGSSHSF KLNKEDVILY SAKVIPGNES RVMKMLNRIS  420
EIGSTIVMGR NEGLHTSGHG YRGELEEVLK IVKPQHFLPI HGELVFLKEH ELLGKSTGVR  480
HTTVIKNGEM LGVSHLRNRK VLSNGFSSLG KENLLLMYSD GDKAFGTSTE LCIDERLRIA  540
SDGIIVVSME ILRPQKIDGI IENSLKGKIR ITTRCLWLDK GKLLDALHKA AHAALSSCPV  600
NCPLAHMERT VSEVLRKMVR KYSGKRPEVI AIALENPAGV LSDELNEKLS GNSNVGFGIP  660
AVRKVMDGHP KRREPNKIKA ENDGNLHIEN TSEQNLIVGN DVETFLPEEV TTSSSPDHAE  720
RHTHSTEDSD EFWKPFIKSS SPIDNLENDN NGFIPIEEHK SELKSDDAAS SGDVSELPSS  780
QLKSSKPAKR NKWTSEEVKK LIKMRGELHS RFHVVKGRMA LWEEISASLL ADGISRSPVQ  840
CKSRWASLVQ KYEEIRSEKK SHKDWPYFEE MNKILSDDFE AAAT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A2e-877763519560RIBONUCLEASE J
5a0t_B2e-877763519560RIBONUCLEASE J
5a0v_A2e-877763519560RIBONUCLEASE J
5a0v_B2e-877763519560RIBONUCLEASE J
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ghi.159001e-127stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1098414741e-127
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During the early stages of embryo development, first observed at the transition stage. In the heart and torpedo stages, predominantly present in the upper part of embryos. In seedlings, strongly expressed in shoot meristems, hypocotyls, in the vascular bundles of cotyledons, and in the veins of mature leaves. In reproductive organs, detected in inflorescences, especially in sepals, filaments, and stigmas, as well as in mature siliques and seeds. {ECO:0000269|PubMed:25871650}.
UniprotTISSUE SPECIFICITY: Moslty expressed in inflorescences, seedlings, leaves, flowers and flower buds, and, to a lower extent, in stems, siliques and roots. {ECO:0000269|PubMed:25871650}.
Functional Description ? help Back to Top
Source Description
UniProtEssential protein required during embryogenesis, especially in initiating and maintaining the organization of shoot apical meristems (SAMs), cotyledons, and hypocotyls (PubMed:15266054, PubMed:25871650). Involved in auxin-mediated pathways during embryogenesis (PubMed:25871650). RNase that has both endonuclease and 5'-3' exonuclease activities. Involved in RNA surveillance to prevent overaccumulation of antisense RNA (PubMed:22033332). Probably involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay (By similarity). {ECO:0000250|UniProtKB:Q72JJ7, ECO:0000269|PubMed:15266054, ECO:0000269|PubMed:22033332, ECO:0000269|PubMed:25871650}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. {ECO:0000269|PubMed:25871650}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_017610820.10.0PREDICTED: ribonuclease J-like isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A0B0P2550.0A0A0B0P255_GOSAR; Ribonuclease J
STRINGGorai.001G059600.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM95392634
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63420.10.0Trihelix family protein
Publications ? help Back to Top
  1. Bryant N,Lloyd J,Sweeney C,Myouga F,Meinke D
    Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis.
    Plant Physiol., 2011. 155(4): p. 1678-89
    [PMID:21139083]
  2. Halpert M,Liveanu V,Glaser F,Schuster G
    The Arabidopsis chloroplast RNase J displays both exo- and robust endonucleolytic activities.
    Plant Mol. Biol., 2019. 99(1-2): p. 17-29
    [PMID:30511330]