PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Gh_A03G0459

Organism

Gossypium hirsutum

Taxonomic ID

3635

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: 861aa MW: 95287.1 Da PI: 7.9049

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A03G0459	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	67.4	3e-21	769	849	1	86
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+ +ev++Li++r ++++r++ k +++lWee+s + e g++rsp qCk+ w +l ++y++ k+ ++++ +++pyf++++ Gh_A03G0459 769 KWKPEEVKKLIKMRGDLHSRFQVVKGRMALWEEISTSLLEDGITRSPAQCKSLWASLVQKYEESKNEKRSH-----KSWPYFEDMN 849 7**************************************************************999996.....57****97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.60.15.10	4.8E-69	76	326	IPR001279	Metallo-beta-lactamase
SuperFamily	SSF56281	1.76E-72	77	491	IPR001279	Metallo-beta-lactamase
SMART	SM00849	7.4E-27	89	286	IPR001279	Metallo-beta-lactamase
Pfam	PF12706	2.0E-11	101	236	IPR001279	Metallo-beta-lactamase
Pfam	PF07521	1.5E-5	432	463	IPR011108	Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profile	PS50090	7.909	762	826	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	1.3E-4	765	828	IPR009057	Homeodomain-like
Pfam	PF13837	7.5E-18	767	850	No hit	No description
CDD	cd12203	1.79E-22	768	833	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 861 aa Download sequence Send to blast
MAASTSLSLC PYILCCKTSP RNRYISCAVG SPTPIGTRRT KVPRKSSGRL DGARKSMEDS 60 VQRKMEQFYE GTAGPPLRVL PIGGLGEIGM NCMLVGHYDR YILIDAGVMF PDYDELGVQK 120 IIPDTTFIKK WSHKIEAVVI THGHEDHIGA LPWVIPALDP HTPIYASSFT MELIKKRLKE 180 NGILVPSRLK VFKIRRRFKA GPFEIEPLRV THSIPDCCGL VLRCADGTIL HTGDWKIDES 240 PLDGKTFDRQ FLEELSKEGV TLMMSDSTNV LSPGRTVSES AVADALSRHI SGAKGRIITT 300 QFASNIHRLG SIKAAADVTG RKLVFIGMSL RTYLDAAWKD GKAPIDPSTL VKAEDIDAYA 360 PKDLIIVTTG SQAEPRAALN LASYGSSHSF KLNKEDVILY SAKVIPGNES RVMKMLNRIS 420 EIGSTIVMGK NEGLHTSGHG YRGELEEVLQ IVKPQHFLPI HGELLFLKEH ELLGKSTGIQ 480 HTTVIKNGEM LGVSHLRNRR VLSNGFSSLG KENLQLMYSD GDKAFGTSTE LCVDERLRIA 540 SDGIIVVSME ILRPQKIDGM VENTLKGKIK ITTRCLWLDK GKLLDTLHKA AHATLSSCPV 600 NCPLAHMERT VSEVLRKTVR KYSGKRPEVI AIALENPAGV LSDELNEKLS GNYNAGFGLP 660 TLRKVVDGHP RRGPPNKMKA EDDGILHLEN ASEPSLLADD DAEPERFLPV EDSSISSPDY 720 TERLTPNTDD SDELEEHEPE VRSDGTASNG DDSEVTGSQP KSSKPKRNKW KPEEVKKLIK 780 MRGDLHSRFQ VVKGRMALWE EISTSLLEDG ITRSPAQCKS LWASLVQKYE ESKNEKRSHK 840 SWPYFEDMNK VLSDFEATAT T

Sequence ? help Back to Top

Protein Sequence Length: 861 aa Download sequence Send to blast

MAASTSLSLC PYILCCKTSP RNRYISCAVG SPTPIGTRRT KVPRKSSGRL DGARKSMEDS  60
VQRKMEQFYE GTAGPPLRVL PIGGLGEIGM NCMLVGHYDR YILIDAGVMF PDYDELGVQK  120
IIPDTTFIKK WSHKIEAVVI THGHEDHIGA LPWVIPALDP HTPIYASSFT MELIKKRLKE  180
NGILVPSRLK VFKIRRRFKA GPFEIEPLRV THSIPDCCGL VLRCADGTIL HTGDWKIDES  240
PLDGKTFDRQ FLEELSKEGV TLMMSDSTNV LSPGRTVSES AVADALSRHI SGAKGRIITT  300
QFASNIHRLG SIKAAADVTG RKLVFIGMSL RTYLDAAWKD GKAPIDPSTL VKAEDIDAYA  360
PKDLIIVTTG SQAEPRAALN LASYGSSHSF KLNKEDVILY SAKVIPGNES RVMKMLNRIS  420
EIGSTIVMGK NEGLHTSGHG YRGELEEVLQ IVKPQHFLPI HGELLFLKEH ELLGKSTGIQ  480
HTTVIKNGEM LGVSHLRNRR VLSNGFSSLG KENLQLMYSD GDKAFGTSTE LCVDERLRIA  540
SDGIIVVSME ILRPQKIDGM VENTLKGKIK ITTRCLWLDK GKLLDTLHKA AHATLSSCPV  600
NCPLAHMERT VSEVLRKTVR KYSGKRPEVI AIALENPAGV LSDELNEKLS GNYNAGFGLP  660
TLRKVVDGHP RRGPPNKMKA EDDGILHLEN ASEPSLLADD DAEPERFLPV EDSSISSPDY  720
TERLTPNTDD SDELEEHEPE VRSDGTASNG DDSEVTGSQP KSSKPKRNKW KPEEVKKLIK  780
MRGDLHSRFQ VVKGRMALWE EISTSLLEDG ITRSPAQCKS LWASLVQKYE ESKNEKRSHK  840
SWPYFEDMNK VLSDFEATAT T

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5a0t_A	2e-87	77	635	19	560	RIBONUCLEASE J
5a0t_B	2e-87	77	635	19	560	RIBONUCLEASE J
5a0v_A	2e-87	77	635	19	560	RIBONUCLEASE J
5a0v_B	2e-87	77	635	19	560	RIBONUCLEASE J
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL 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}.
Uniprot	TISSUE 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
UniProt	Essential 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
UniProt	INDUCTION: By light. {ECO:0000269\|PubMed:25871650}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016665594.1	0.0	PREDICTED: ribonuclease J-like isoform X1
Swissprot	Q84W56	0.0	RNJ_ARATH; Ribonuclease J
TrEMBL	A0A1U8HQK8	0.0	A0A1U8HQK8_GOSHI; ribonuclease J-like isoform X1
STRING	Gorai.003G119600.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9539	26	34

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63420.1	0.0	Trihelix family protein

Publications ? help Back to Top
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] 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]