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.06G171400.2.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: 738aa MW: 81248.2 Da PI: 7.8773

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.06G171400.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	58.8	1.4e-18	647	726	1	86
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+ +ev++Li +r+e+ er++ k +++lWee+s+k+ + g+ rsp qCk+ w +l +y+ ik+ ++k+ ++py +++e Glyma.06G171400.2.p 647 KWKTEEVKKLIGMREELSERFQVVKGRMALWEEISQKLLADGICRSPGQCKSLWTSLVVKYEGIKNEDRKK------SWPYIEDME 726 7****************************************************************9984......6****98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.60.15.10	1.7E-36	9	180	IPR001279	Metallo-beta-lactamase
SuperFamily	SSF56281	4.18E-45	14	345	IPR001279	Metallo-beta-lactamase
Pfam	PF07521	8.6E-7	286	317	IPR011108	Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profile	PS50090	8.327	640	704	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	1.8E-4	640	704	IPR009057	Homeodomain-like
Pfam	PF13837	5.9E-15	645	728	No hit	No description
CDD	cd12203	5.44E-19	646	711	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: 738 aa Download sequence Send to blast
MVMKIILVIP ALDSNTPIFA SSFTMELIKK RLKEHGIFVP SRLKVFRTRK KFVAGPFEIE 60 PIRVTHSIPD CCGLVLRCSD GTILHTGDWK IDETPLDGKV FDREALEELS KEGVTLMMSD 120 STNVLSPGRT ISESVVADAL LRHISASKGR VITTQFASNL HRLGSVKAAA DLTGRKLVFV 180 GMSLRTYLDA AWKDGKAPID PSTLVKAEDI DAYAPKDLLI VTTGSQAEPR AALNLASYGS 240 SHAFKLAKED VVLYSAKVIP GNESRVMKML NRISEIGSTI VMGKNEGLHT SGHAYRGELE 300 EILRIVKPQH FLPIHGELLF LKEHELLGKS TGIRHTAVIK NGEMLGVSHL RNRRVLSNGF 360 ISLGKENLQL KYSDGDRAFG TSSDLFIDER LRIALDGIIV ISMEIFRPKI LDGSAENTLK 420 GKIRITTRCL WLDKGKLMDA LYKAARAALS SCPVKSPLAH IERIVSEVLR KMVRKYSGKR 480 PEVIAIAIEK PAAILADEIN TKLSGKSHVG LGMSTLSKAV DGHGKGNQST ALQVKDDSID 540 NASGAEGDLS EEDNTASGPE GYLSEEDNTA SGAEGDLSES EDSDEFWKPF ITSLPVEKSI 600 NADNGYVSPK EQKSNLKKDE SEDIDEAKSE ETSNSEAKSS KSVKRNKWKT EEVKKLIGMR 660 EELSERFQVV KGRMALWEEI SQKLLADGIC RSPGQCKSLW TSLVVKYEGI KNEDRKKSWP 720 YIEDMERIMS DKEAPAK*

Sequence ? help Back to Top

Protein Sequence Length: 738 aa Download sequence Send to blast

MVMKIILVIP ALDSNTPIFA SSFTMELIKK RLKEHGIFVP SRLKVFRTRK KFVAGPFEIE  60
PIRVTHSIPD CCGLVLRCSD GTILHTGDWK IDETPLDGKV FDREALEELS KEGVTLMMSD  120
STNVLSPGRT ISESVVADAL LRHISASKGR VITTQFASNL HRLGSVKAAA DLTGRKLVFV  180
GMSLRTYLDA AWKDGKAPID PSTLVKAEDI DAYAPKDLLI VTTGSQAEPR AALNLASYGS  240
SHAFKLAKED VVLYSAKVIP GNESRVMKML NRISEIGSTI VMGKNEGLHT SGHAYRGELE  300
EILRIVKPQH FLPIHGELLF LKEHELLGKS TGIRHTAVIK NGEMLGVSHL RNRRVLSNGF  360
ISLGKENLQL KYSDGDRAFG TSSDLFIDER LRIALDGIIV ISMEIFRPKI LDGSAENTLK  420
GKIRITTRCL WLDKGKLMDA LYKAARAALS SCPVKSPLAH IERIVSEVLR KMVRKYSGKR  480
PEVIAIAIEK PAAILADEIN TKLSGKSHVG LGMSTLSKAV DGHGKGNQST ALQVKDDSID  540
NASGAEGDLS EEDNTASGPE GYLSEEDNTA SGAEGDLSES EDSDEFWKPF ITSLPVEKSI  600
NADNGYVSPK EQKSNLKKDE SEDIDEAKSE ETSNSEAKSS KSVKRNKWKT EEVKKLIGMR  660
EELSERFQVV KGRMALWEEI SQKLLADGIC RSPGQCKSLW TSLVVKYEGI KNEDRKKSWP  720
YIEDMERIMS DKEAPAK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5a0t_A	2e-60	15	489	102	560	RIBONUCLEASE J
5a0t_B	2e-60	15	489	102	560	RIBONUCLEASE J
5a0v_A	2e-60	15	489	102	560	RIBONUCLEASE J
5a0v_B	2e-60	15	489	102	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.06G171400.2.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-148	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_006581876.1	0.0	ribonuclease J isoform X1
Swissprot	Q84W56	0.0	RNJ_ARATH; Ribonuclease J
TrEMBL	A0A0R0JND0	0.0	A0A0R0JND0_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.06G171400.2.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]