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

Zjn_sc00017.1.g03780.1.am.mkhc

Organism

Zoysia japonica

Taxonomic ID

309978

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Zoysieae; Zoysiinae; Zoysia

Family

Trihelix

Protein Properties

Length: 112aa MW: 12894.7 Da PI: 10.0211

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Zjn_sc00017.1.g03780.1.am.mkhc	genome	ZGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	74	2.6e-23	20	100	1	86
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstc 79 +W+ +e++ Li++r em++++++ k +++lWee+s m +g +r+p qCk+ w +l ++y++ k+ e+++ +t+ Zjn_sc00017.1.g03780.1.am.mkhc 20 KWKPEEIKNLIQMRGEMNDKFQSVKGRMALWEEISGSMLNQGTSRTPAQCKSLWTSLVQKYEESKRDEESK-----KTW 93 7****************************************************************99984.....78 PP trihelix 80 pyfdqle 86 pyf+ ++ Zjn_sc00017.1.g03780.1.am.mkhc 94 PYFSAMD 100 ******8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50090	7.886	13	77	IPR017877	Myb-like domain
SuperFamily	SSF46689	1.55E-5	16	85	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	8.4E-7	16	79	IPR009057	Homeodomain-like
SMART	SM00717	0.0034	17	79	IPR001005	SANT/Myb domain
CDD	cd12203	8.65E-19	19	84	No hit	No description
Pfam	PF13837	1.4E-19	19	102	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: 112 aa Download sequence Send to blast
MSKDSNQSAP APVKSSKKNK WKPEEIKNLI QMRGEMNDKF QSVKGRMALW EEISGSMLNQ 60 GTSRTPAQCK SLWTSLVQKY EESKRDEESK KTWPYFSAMD QILSREGEMA TK

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK059666	6e-82	AK059666.1 Oryza sativa Japonica Group cDNA clone:001-031-F01, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025800218.1	4e-62	ribonuclease J isoform X2
Swissprot	Q84W56	7e-37	RNJ_ARATH; Ribonuclease J
TrEMBL	A0A0A9UMM5	4e-63	A0A0A9UMM5_ARUDO; Uncharacterized protein
TrEMBL	A0A1E5W342	4e-62	A0A1E5W342_9POAL; Ribonuclease J
TrEMBL	A0A2T7F7E7	4e-62	A0A2T7F7E7_9POAL; Uncharacterized protein
STRING	Pavir.Ab01874.1.p	5e-62	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP4996	35	42

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63420.1	3e-39	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]