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

cra_locus_8014_iso_4

Organism

Catharanthus roseus

Taxonomic ID

4058

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus

Family

Trihelix

Protein Properties

Length: 472aa MW: 52622.9 Da PI: 7.2462

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
cra_locus_8014_iso_4	genome	MPGR	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	66.9	4.1e-21	380	460	1	86
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtse 74 +W+ +e++ Li++r e+++r++ k +++lWee+s+++ + g++rsp qCk+ w +l ++y++ k ++++ cra_locus_8014_iso_4_len_2182_ver_3 380 KWKPEEIKNLIKMRGELHSRFQVLKGRMALWEEISSNLLSAGINRSPGQCKSLWASLVQKYEESKSDSRSK--- 450 7**************************************************************999984... PP trihelix 75 ssstcpyfdqle 86 +++pyf++++ cra_locus_8014_iso_4_len_2182_ver_3 451 --ENWPYFEDMD 460 ..79*****8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF07521	8.5E-5	27	56	IPR011108	Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profile	PS50090	8.107	373	437	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	3.8E-5	374	439	IPR009057	Homeodomain-like
Pfam	PF13837	2.0E-18	378	462	No hit	No description
CDD	cd12203	2.19E-22	379	444	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
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 472 aa Download sequence Send to blast
MIVDVALDLL SPPPTSFSSF STSMNIVDSA GHGHREELDE VLKIVKPQHF LPIHGELLFL 60 KEHELLGKST GIRHTAVIKN GEMLGVSHLR NRRVLSNGFT SLGKENLQLM YSDGDKAFGT 120 ATELCIDERL RIASDGIIVV SMEILRPQDA DGLTEKTLKG KIRITTRCLW LDKGKLLDAL 180 HKAAHAALSS CPVNCPLAHM ERTVSEVLRK MVRKYSSKRP EVIAIATENP TGVIADEINR 240 KLSDKSHANF GMSLRKVVDG HQRTQLSGTQ EDVNSRTQLG SITEQESEEH GIDFERLVPE 300 NDEINLNSKS NERFPPNGTE SAAFWQSFVG SAPLNLSEKG ENGLLPQGQH SEESESISSE 360 LELGMPKSKL KSSKPVKRNK WKPEEIKNLI KMRGELHSRF QVLKGRMALW EEISSNLLSA 420 GINRSPGQCK SLWASLVQKY EESKSDSRSK ENWPYFEDMD KILSGLETKL PS

Sequence ? help Back to Top

Protein Sequence Length: 472 aa Download sequence Send to blast

MIVDVALDLL SPPPTSFSSF STSMNIVDSA GHGHREELDE VLKIVKPQHF LPIHGELLFL  60
KEHELLGKST GIRHTAVIKN GEMLGVSHLR NRRVLSNGFT SLGKENLQLM YSDGDKAFGT  120
ATELCIDERL RIASDGIIVV SMEILRPQDA DGLTEKTLKG KIRITTRCLW LDKGKLLDAL  180
HKAAHAALSS CPVNCPLAHM ERTVSEVLRK MVRKYSSKRP EVIAIATENP TGVIADEINR  240
KLSDKSHANF GMSLRKVVDG HQRTQLSGTQ EDVNSRTQLG SITEQESEEH GIDFERLVPE  300
NDEINLNSKS NERFPPNGTE SAAFWQSFVG SAPLNLSEKG ENGLLPQGQH SEESESISSE  360
LELGMPKSKL KSSKPVKRNK WKPEEIKNLI KMRGELHSRF QVLKGRMALW EEISSNLLSA  420
GINRSPGQCK SLWASLVQKY EESKSDSRSK ENWPYFEDMD KILSGLETKL PS

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_027165523.1	0.0	ribonuclease J isoform X4
Swissprot	Q84W56	1e-179	RNJ_ARATH; Ribonuclease J
TrEMBL	A0A068UQY7	0.0	A0A068UQY7_COFCA; Uncharacterized protein
STRING	EOY22451	0.0	(Theobroma cacao)
STRING	XP_002511207.1	0.0	(Ricinus communis)

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]