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 Cotton_A_19924_BGI-A2_v1.0
Common NameF383_21420
Organism
Gossypium arboreum
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: 866aa    MW: 96081.5 Da    PI: 9.3639
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cotton_A_19924_BGI-A2_v1.0genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix57.53.5e-18778839162
                    trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkryk 62 
                                 +Wt +ev++Li++r e+++r+   k +++lWee+s+ + + g++rsp+qCk++w +l ++y+
  Cotton_A_19924_BGI-A2_v1.0 778 KWTSEEVKKLIKMRGELHSRFHVVKGRMALWEEISASLLADGISRSPVQCKSRWASLVQKYE 839
                                 7***********************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.3E-6876326IPR001279Metallo-beta-lactamase
SuperFamilySSF562812.67E-7377491IPR001279Metallo-beta-lactamase
SMARTSM008493.3E-2889286IPR001279Metallo-beta-lactamase
PfamPF127063.1E-11101236IPR001279Metallo-beta-lactamase
PfamPF075214.1E-6430464IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500909.117771835IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.602.7E-7774837IPR009057Homeodomain-like
SuperFamilySSF466897.91E-6774836IPR009057Homeodomain-like
SMARTSM007171.7E-5775837IPR001005SANT/Myb domain
PfamPF138379.6E-14776842No hitNo description
CDDcd122031.18E-20777839No 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: 866 aa     Download sequence    Send to blast
MAASTALSLC PYILSRRPTP RKRRFSCSVG STTPIGTRRT NVPRRSPGRL DGARKSMEDS  60
VLRKMEQFYE GTAGPPLRVL PIGGLGEIGM NCMLVGNYDR YILIDAGVMF PDYDELGVQK  120
IIPDTTFIKK WSHKIEAVVI THGHEDHIGA LPWVIPALDP HTPIYASSFT MELIKKRLKE  180
NGIFVPSRLK VFKMRKRFTA 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 ELLGKSTGIR  480
HTTVIKNGEM LGVSHLRNRK VLSNGFSSLG KENLLLMYSD GDKAFGTSTE LCIDERLRIA  540
SDGIIVVSME ILRPQKIDGI IENSLKGKIR ITTRCLWLDK GKLLDALHKA AHAALSSCPV  600
NCPLAHMERT VSEVLRKMVR KYSGKRPEVI AIALENPAGV LSDELNEKLS GNSNVGFGIP  660
AVRKVMDGHP KRREPNKIKA ENDVGNDVET FLPEEVTTSS SPDHAERHTH STEDSDEFWK  720
PFIKSSSPID NLENDNNGFI PIEEHKSELK SDDAASSGDV SELPSSQLKS SKPAKRNKWT  780
SEEVKKLIKM RGELHSRFHV VKGRMALWEE ISASLLADGI SRSPVQCKSR WASLVQKYEV  840
HNIHFDPSSF TATLKNLKLF KPRMAE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A1e-877763519560RIBONUCLEASE J
5a0t_B1e-877763519560RIBONUCLEASE J
5a0v_A1e-877763519560RIBONUCLEASE J
5a0v_B1e-877763519560RIBONUCLEASE J
Search in ModeBase
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
TrEMBLA0A2P5VYP70.0A0A2P5VYP7_GOSBA; Uncharacterized protein
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]