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

CA03g24530

Organism

Capsicum annuum

Taxonomic ID

4072

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Capsiceae; Capsicum

Family

Trihelix

Protein Properties

Length: 886aa MW: 97395.5 Da PI: 8.6132

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CA03g24530	genome	PEP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	63.6	4.5e-20	793	873	1	86
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+++e+++Li++r e++++++ +++++lWee+s+ + g+ersp qCk+ w +l ++y++ k+ +k+ ++++pyf++l+ CA03g24530 793 KWKHDEIQKLIALRGELHSKFQVVRRRMALWEEISSSFLSIGVERSPAQCKSLWASLVQKYEENKRDKKS-----QEKWPYFEELN 873 7**********************************************************999998887.....578****97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.60.15.10	2.3E-67	81	331	IPR001279	Metallo-beta-lactamase
SuperFamily	SSF56281	4.8E-72	82	496	IPR001279	Metallo-beta-lactamase
SMART	SM00849	7.7E-26	94	291	IPR001279	Metallo-beta-lactamase
Pfam	PF00753	4.8E-10	95	240	IPR001279	Metallo-beta-lactamase
Pfam	PF07521	1.7E-7	439	468	IPR011108	Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profile	PS50090	7.561	786	850	IPR017877	Myb-like domain
Pfam	PF13837	7.8E-17	791	875	No hit	No description
CDD	cd12203	9.84E-21	792	857	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: 886 aa Download sequence Send to blast
MAAAFSSAIS LCPYKLCHRL NPRNRYISCC TPSSSSSSSI GVHGSKGPRK RPGKMEGAGR 60 SIDDSVQRRM EQFYEGPDGP PLRVLPIGGL GEIGMNCMLV GNYDRYILID AGIMFPGYDE 120 PGVQKIIPDT TFIKKWSHKI EAVVITHGHE DHIGALPWVI PALDSHTPIF ASSFTMELIK 180 KRLKEFGIFV PSRLKVFKTR RKFTAGPFEV EPITVTHSIP DCSGIVLRCA DGTILHTGDW 240 KIDESPLDGK VFDREALEEL SKEGVTLMMS DSTNVLSPGR TLSETVVADS LLRHISAAKG 300 RVITTQFASN IHRLGSVKAA ADLTGRKLVF VGMSLRTYLD AAWKDGKAPI DPSTLLKVED 360 IDAYAPKDLL IVTTGSQAEP RAALNLSSYG SSHSLKLSKE DLVLYSAKVI PGNDTRVMQM 420 LNRISDIGST IVMGKNELLH TSGHAHREEL EEVLRIVKPQ HFLPVHGELL FLKEHELLGK 480 STGIQHTAVI KNGEMLGISH LRNRKVLSNG FTSLGKEKLQ LMYSDGDKAF GTAAELCIDE 540 RLRISSDGII VVSMEILRPQ STDGMTEKAL KGKIRITTRC LWLDKGKLLD GLHKAAHAAL 600 SSCPLSSPLS HMERTVSEVL RKLVRKYSSK RPEVIAIAFE NPAGVLADEI YGKLSGKSHV 660 GFGISAPRNV LDKDQKRRQE SGACAEEGNG HVHPIDAAEQ VKAGDDMDIE RLTHDGATTS 720 SSNSPDEYST TEVLFDDSSV SFVSSSLLGQ LKEGEFGAST QGGSELSRKE SIQIDSGSPQ 780 TMVKTSKPSK RNKWKHDEIQ KLIALRGELH SKFQVVRRRM ALWEEISSSF LSIGVERSPA 840 QCKSLWASLV QKYEENKRDK KSQEKWPYFE ELNRILSGLE ATAQK*

Sequence ? help Back to Top

Protein Sequence Length: 886 aa Download sequence Send to blast

MAAAFSSAIS LCPYKLCHRL NPRNRYISCC TPSSSSSSSI GVHGSKGPRK RPGKMEGAGR  60
SIDDSVQRRM EQFYEGPDGP PLRVLPIGGL GEIGMNCMLV GNYDRYILID AGIMFPGYDE  120
PGVQKIIPDT TFIKKWSHKI EAVVITHGHE DHIGALPWVI PALDSHTPIF ASSFTMELIK  180
KRLKEFGIFV PSRLKVFKTR RKFTAGPFEV EPITVTHSIP DCSGIVLRCA DGTILHTGDW  240
KIDESPLDGK VFDREALEEL SKEGVTLMMS DSTNVLSPGR TLSETVVADS LLRHISAAKG  300
RVITTQFASN IHRLGSVKAA ADLTGRKLVF VGMSLRTYLD AAWKDGKAPI DPSTLLKVED  360
IDAYAPKDLL IVTTGSQAEP RAALNLSSYG SSHSLKLSKE DLVLYSAKVI PGNDTRVMQM  420
LNRISDIGST IVMGKNELLH TSGHAHREEL EEVLRIVKPQ HFLPVHGELL FLKEHELLGK  480
STGIQHTAVI KNGEMLGISH LRNRKVLSNG FTSLGKEKLQ LMYSDGDKAF GTAAELCIDE  540
RLRISSDGII VVSMEILRPQ STDGMTEKAL KGKIRITTRC LWLDKGKLLD GLHKAAHAAL  600
SSCPLSSPLS HMERTVSEVL RKLVRKYSSK RPEVIAIAFE NPAGVLADEI YGKLSGKSHV  660
GFGISAPRNV LDKDQKRRQE SGACAEEGNG HVHPIDAAEQ VKAGDDMDIE RLTHDGATTS  720
SSNSPDEYST TEVLFDDSSV SFVSSSLLGQ LKEGEFGAST QGGSELSRKE SIQIDSGSPQ  780
TMVKTSKPSK RNKWKHDEIQ KLIALRGELH SKFQVVRRRM ALWEEISSSF LSIGVERSPA  840
QCKSLWASLV QKYEENKRDK KSQEKWPYFE ELNRILSGLE ATAQK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5a0t_A	2e-86	82	640	19	560	RIBONUCLEASE J
5a0t_B	2e-86	82	640	19	560	RIBONUCLEASE J
5a0v_A	2e-86	82	640	19	560	RIBONUCLEASE J
5a0v_B	2e-86	82	640	19	560	RIBONUCLEASE J
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	671	677	DKDQKRR

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	HG975442	1e-174	HG975442.1 Solanum pennellii chromosome ch03, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016563823.1	0.0	PREDICTED: ribonuclease J isoform X1
Swissprot	Q84W56	0.0	RNJ_ARATH; Ribonuclease J
TrEMBL	A0A1U8G532	0.0	A0A1U8G532_CAPAN; ribonuclease J isoform X1
STRING	XP_009774848.1	0.0	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA5874	23	31

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] 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]