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

KHN31905.1

Organism

Glycine soja

Taxonomic ID

3848

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: 888aa MW: 97634.9 Da PI: 8.9965

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KHN31905.1	genome	TCUHK	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	60.4	4.4e-19	796	876	1	86
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+ +ev++Li +r e+ +r++ k +++lWee+s+k+ + g+ rsp qCk+ w +l +y+ ik+ + ++ +++py +++e KHN31905.1 796 KWKTEEVKKLIGMRGELSDRFQVVKGRMALWEEISQKLLADGICRSPGQCKSLWTSLVVKYEGIKNKNDSK-----KSWPYIEDME 876 7******************************************************************85.....56*****8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.60.15.10	1.8E-67	79	329	IPR001279	Metallo-beta-lactamase
SuperFamily	SSF56281	2.14E-72	80	494	IPR001279	Metallo-beta-lactamase
SMART	SM00849	9.0E-25	92	289	IPR001279	Metallo-beta-lactamase
Pfam	PF00753	1.1E-10	93	237	IPR001279	Metallo-beta-lactamase
Pfam	PF07521	9.3E-7	435	466	IPR011108	Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profile	PS50090	7.747	789	853	IPR017877	Myb-like domain
Pfam	PF13837	4.1E-16	794	878	No hit	No description
CDD	cd12203	7.47E-20	795	860	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009658	Biological Process	chloroplast organization
GO:0009942	Biological Process	longitudinal axis specification
GO:0060918	Biological Process	auxin transport
GO:0009507	Cellular Component	chloroplast

Sequence ? help Back to Top
Protein Sequence Length: 888 aa Download sequence Send to blast
MSALTSLSLS LRTLSLRPKP TTSLSASLSA IPGTGSSDGS KTKVPPRKRT RRIEGPRKSM 60 EDSVQRKMEQ FYEGSDGPPL RVLPIGGLGE IGMNCMLVGN HDRYILIDAG VMFPDYDELG 120 VQKIIPDTTF IRKWSHKIEA LVITHGHEDH IGALPWVIPA LDSNTPIFAS SFTLELMKKR 180 LKEHGIFVPS RLKVFRTRKK FVAGPFEIEP IRVTHSIPDC CGLVLRCSDG TILHTGDWKI 240 DETPLDGKVF DREALEELSK EGVTLMMSDS TNVLSPGRTI SESVVADALL RHISASKGRV 300 ITTQFASNLH RLGSVKAAAD LTGRKLVFVG MSLRTYLDAA WKDGKAPIDP STLVKAEDID 360 AYAPKDLLIV TTGSQAEPRA ALNLSSYGSS HAFKLTKEDV VLYSAKVIPG NESRVMKMLN 420 RISEIGSTIV MGKNEGLHTS GHAYRGELEE VLRIVKPQHF LPIHGELLFL KEHELLGKST 480 GIRHTAVIKN GEMLGVSHLR NRRVLSNGFI SLGKENLQLK YSDGDRAFGT SSDLFIDERL 540 RIALDGIIVI SMEIFRPKVL DGSAENTLKG KIRITTRCLW LDKGKLMDAL YKAARAALSS 600 CPVKSPLAHI ERIVSEVLRK TVRKYSGKRP EVIAIAIEKP AAILADEINT KLSGKSHVGL 660 GMSALSKAVD GHRKGNQSTA LQVKDDSIGN ASGAGGDLSD ENNTASGPEG YLSEEDNTAS 720 GAEGDLSESE DSDEFWKPFI TSLPVEKSIS ADNSYVSQKE QKSNLKKDDS EDIDEAKSEE 780 TSNSEPKLSK LVKRNKWKTE EVKKLIGMRG ELSDRFQVVK GRMALWEEIS QKLLADGICR 840 SPGQCKSLWT SLVVKYEGIK NKNDSKKSWP YIEDMERIMS DKEAPATK

Sequence ? help Back to Top

Protein Sequence Length: 888 aa Download sequence Send to blast

MSALTSLSLS LRTLSLRPKP TTSLSASLSA IPGTGSSDGS KTKVPPRKRT RRIEGPRKSM  60
EDSVQRKMEQ FYEGSDGPPL RVLPIGGLGE IGMNCMLVGN HDRYILIDAG VMFPDYDELG  120
VQKIIPDTTF IRKWSHKIEA LVITHGHEDH IGALPWVIPA LDSNTPIFAS SFTLELMKKR  180
LKEHGIFVPS RLKVFRTRKK FVAGPFEIEP IRVTHSIPDC CGLVLRCSDG TILHTGDWKI  240
DETPLDGKVF DREALEELSK EGVTLMMSDS TNVLSPGRTI SESVVADALL RHISASKGRV  300
ITTQFASNLH RLGSVKAAAD LTGRKLVFVG MSLRTYLDAA WKDGKAPIDP STLVKAEDID  360
AYAPKDLLIV TTGSQAEPRA ALNLSSYGSS HAFKLTKEDV VLYSAKVIPG NESRVMKMLN  420
RISEIGSTIV MGKNEGLHTS GHAYRGELEE VLRIVKPQHF LPIHGELLFL KEHELLGKST  480
GIRHTAVIKN GEMLGVSHLR NRRVLSNGFI SLGKENLQLK YSDGDRAFGT SSDLFIDERL  540
RIALDGIIVI SMEIFRPKVL DGSAENTLKG KIRITTRCLW LDKGKLMDAL YKAARAALSS  600
CPVKSPLAHI ERIVSEVLRK TVRKYSGKRP EVIAIAIEKP AAILADEINT KLSGKSHVGL  660
GMSALSKAVD GHRKGNQSTA LQVKDDSIGN ASGAGGDLSD ENNTASGPEG YLSEEDNTAS  720
GAEGDLSESE DSDEFWKPFI TSLPVEKSIS ADNSYVSQKE QKSNLKKDDS EDIDEAKSEE  780
TSNSEPKLSK LVKRNKWKTE EVKKLIGMRG ELSDRFQVVK GRMALWEEIS QKLLADGICR  840
SPGQCKSLWT SLVVKYEGIK NKNDSKKSWP YIEDMERIMS DKEAPATK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5a0t_A	2e-86	80	638	19	560	RIBONUCLEASE J
5a0t_B	2e-86	80	638	19	560	RIBONUCLEASE J
5a0v_A	2e-86	80	638	19	560	RIBONUCLEASE J
5a0v_B	2e-86	80	638	19	560	RIBONUCLEASE J
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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	KHN31905.1

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_028229413.1	0.0	ribonuclease J-like isoform X1
Swissprot	Q84W56	0.0	RNJ_ARATH; Ribonuclease J
TrEMBL	A0A0B2RF15	0.0	A0A0B2RF15_GLYSO; Ribonuclease J
STRING	GLYMA04G37020.2	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF5099	34	50

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] Qi X, et al. Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing. Nat Commun, 2014. 5: p. 4340 [PMID:25004933] 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]