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

Glyma.06G171400.4.p

Common Name

GLYMA_06G171400

Organism

Glycine max

Taxonomic ID

3847

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja

Family

Trihelix

Protein Properties

Length: 858aa MW: 94148.9 Da PI: 8.2145

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.06G171400.4.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	48.5	2.4e-15	794	855	1	62
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkryk 62 +W+ +ev++Li +r+e+ er++ k +++lWee+s+k+ + g+ rsp qCk+ w +l +y+ Glyma.06G171400.4.p 794 KWKTEEVKKLIGMREELSERFQVVKGRMALWEEISQKLLADGICRSPGQCKSLWTSLVVKYE 855 7********************************************************99986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.60.15.10	3.3E-68	77	327	IPR001279	Metallo-beta-lactamase
SuperFamily	SSF56281	5.67E-73	78	492	IPR001279	Metallo-beta-lactamase
SMART	SM00849	2.3E-25	90	287	IPR001279	Metallo-beta-lactamase
Pfam	PF00753	2.8E-10	91	235	IPR001279	Metallo-beta-lactamase
Pfam	PF07521	1.0E-6	433	464	IPR011108	Zn-dependent metallo-hydrolase, RNA specificity domain
Gene3D	G3DSA:1.10.10.60	2.2E-4	787	851	IPR009057	Homeodomain-like
PROSITE profile	PS50090	8.327	787	851	IPR017877	Myb-like domain
Pfam	PF13837	2.4E-10	792	855	No hit	No description
CDD	cd12203	4.91E-19	793	857	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: 858 aa Download sequence Send to blast
MSALTSLSLS LRTLSLRPKP TTLSASLSAI PGSSDGSKTK VPPRKRRTGR IEGPRKSMED 60 SVQRKMEQFY EGSDGPPLRI LPIGGLGEIG MNCMLVGNND RYILIDAGVM FPDYDELGVQ 120 KIIPDTTFIR KWSHKIEALI ITHGHEDHIG ALPWVIPALD SNTPIFASSF TMELIKKRLK 180 EHGIFVPSRL KVFRTRKKFV AGPFEIEPIR VTHSIPDCCG LVLRCSDGTI LHTGDWKIDE 240 TPLDGKVFDR EALEELSKEG VTLMMSDSTN VLSPGRTISE SVVADALLRH ISASKGRVIT 300 TQFASNLHRL GSVKAAADLT GRKLVFVGMS LRTYLDAAWK DGKAPIDPST LVKAEDIDAY 360 APKDLLIVTT GSQAEPRAAL NLASYGSSHA FKLAKEDVVL YSAKVIPGNE SRVMKMLNRI 420 SEIGSTIVMG KNEGLHTSGH AYRGELEEIL RIVKPQHFLP IHGELLFLKE HELLGKSTGI 480 RHTAVIKNGE MLGVSHLRNR RVLSNGFISL GKENLQLKYS DGDRAFGTSS DLFIDERLRI 540 ALDGIIVISM EIFRPKILDG SAENTLKGKI RITTRCLWLD KGKLMDALYK AARAALSSCP 600 VKSPLAHIER IVSEVLRKMV RKYSGKRPEV IAIAIEKPAA ILADEINTKL SGKSHVGLGM 660 STLSKAVDGH GKGNQSTALQ VKDDSIDNAS GAEGDLSEED NTASGPEGYL SEEDNTASGA 720 EGDLSESEDS DEFWKPFITS LPVEKSINAD NGYVSPKEQK SNLKKDESED IDEAKSEETS 780 NSEAKSSKSV KRNKWKTEEV KKLIGMREEL SERFQVVKGR MALWEEISQK LLADGICRSP 840 GQCKSLWTSL VVKYEIT*

Sequence ? help Back to Top

Protein Sequence Length: 858 aa Download sequence Send to blast

MSALTSLSLS LRTLSLRPKP TTLSASLSAI PGSSDGSKTK VPPRKRRTGR IEGPRKSMED  60
SVQRKMEQFY EGSDGPPLRI LPIGGLGEIG MNCMLVGNND RYILIDAGVM FPDYDELGVQ  120
KIIPDTTFIR KWSHKIEALI ITHGHEDHIG ALPWVIPALD SNTPIFASSF TMELIKKRLK  180
EHGIFVPSRL KVFRTRKKFV AGPFEIEPIR VTHSIPDCCG LVLRCSDGTI LHTGDWKIDE  240
TPLDGKVFDR EALEELSKEG VTLMMSDSTN VLSPGRTISE SVVADALLRH ISASKGRVIT  300
TQFASNLHRL GSVKAAADLT GRKLVFVGMS LRTYLDAAWK DGKAPIDPST LVKAEDIDAY  360
APKDLLIVTT GSQAEPRAAL NLASYGSSHA FKLAKEDVVL YSAKVIPGNE SRVMKMLNRI  420
SEIGSTIVMG KNEGLHTSGH AYRGELEEIL RIVKPQHFLP IHGELLFLKE HELLGKSTGI  480
RHTAVIKNGE MLGVSHLRNR RVLSNGFISL GKENLQLKYS DGDRAFGTSS DLFIDERLRI  540
ALDGIIVISM EIFRPKILDG SAENTLKGKI RITTRCLWLD KGKLMDALYK AARAALSSCP  600
VKSPLAHIER IVSEVLRKMV RKYSGKRPEV IAIAIEKPAA ILADEINTKL SGKSHVGLGM  660
STLSKAVDGH GKGNQSTALQ VKDDSIDNAS GAEGDLSEED NTASGPEGYL SEEDNTASGA  720
EGDLSESEDS DEFWKPFITS LPVEKSINAD NGYVSPKEQK SNLKKDESED IDEAKSEETS  780
NSEAKSSKSV KRNKWKTEEV KKLIGMREEL SERFQVVKGR MALWEEISQK LLADGICRSP  840
GQCKSLWTSL VVKYEIT*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5a0t_A	4e-87	78	636	19	560	RIBONUCLEASE J
5a0t_B	4e-87	78	636	19	560	RIBONUCLEASE J
5a0v_A	4e-87	78	636	19	560	RIBONUCLEASE J
5a0v_B	4e-87	78	636	19	560	RIBONUCLEASE J
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gma.62970	0.0	leaf

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Glyma.06G171400.4.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. {ECO:0000269\|PubMed:25871650}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015035	1e-147	AP015035.1 Vigna angularis var. angularis DNA, chromosome 2, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006581877.1	0.0	ribonuclease J isoform X2
Swissprot	Q84W56	0.0	RNJ_ARATH; Ribonuclease J
TrEMBL	A0A0R0JPS3	0.0	A0A0R0JPS3_SOYBN; Uncharacterized protein
STRING	GLYMA06G17980.1	0.0	(Glycine max)

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

Link Out ? help Back to Top
Phytozome	Glyma.06G171400.4.p

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]