Reviewed, UniProtKB/Swiss-Prot P85208 (RIPD2_PHYDI)

Names and origin

Protein names	Recommended name:     Dioicin-2     EC=3.2.2.22 Alternative name(s):     Ribosome-inactivating protein     rRNA N-glycosidase
Organism	Phytolacca dioica (Bella sombra tree) (Phytolacca arborea)
Taxonomic identifier	29725 [NCBI]
Taxonomic lineage	Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › Caryophyllales › Phytolaccaceae › Phytolacca

Protein attributes

Sequence length	266 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Nicks pBR322 dsDNA. Has adenine polynucleotide glycosidase activity on herring sperm ssDNA. Ref.1
Catalytic activity	Endohydrolysis of the N-glycosidic bond at one specific adenosine on the 28S rRNA. Ref.1
Subcellular location	Secreted › extracellular space. Golgi apparatus. Vacuole Ref.1.
Developmental stage	Detected in fully expanded leaves of 8 to 34 month old plants, levels peak in autumn. Also present in developing leaves (10-60 days old) of adult plants. Ref.1
Sequence similarities	Belongs to the ribosome-inactivating protein family. Type 1 RIP subfamily.
Mass spectrometry	Molecular mass is 29910.00 Da from positions 1 - 266. Determined by ESI. Ref.1

Ontologies

Keywords
Biological process	Plant defense
Cellular component	Golgi apparatus Secreted Vacuole
Molecular function	Hydrolase Protein synthesis inhibitor Toxin
PTM	Disulfide bond
Technical term	Direct protein sequencing
Gene Ontology (GO)
Biological process	defense response Inferred from electronic annotation. Source: UniProtKB-KW negative regulation of translation Inferred from electronic annotation. Source: UniProtKB-KW pathogenesis Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	Golgi apparatus Inferred from electronic annotation. Source: UniProtKB-SubCell extracellular space Inferred from electronic annotation. Source: UniProtKB-SubCell vacuole Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	rRNA N-glycosylase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 266	266	Dioicin-2		PRO_0000372680
Sites
	Active site	176	1	By similarity UniProtKB P20656
Amino acid modifications
	Disulfide bond	32 ↔ 263		Ref.1
	Disulfide bond	85 ↔ 102		Ref.1

Sequences

	Sequence		Length	Mass (Da)
	P85208-1 [UniParc]. Last modified May 5, 2009. Version 1. Checksum: 3D8363C8CC46C53A	FASTA	266	29,914
	10 20 30 40 50 60 NIVFDVENAT PETYSSFLTS LREAVKDKKS TCHGMIMATT TTELPKYVLV DLKLGSEKDA 70 80 90 100 110 120 KTFTLAIRRG NLYLEGYSDI YNEKCRYRIF EDSESDAQQT VCPGDLTLPG SQNKIPYKKS 130 140 150 160 170 180 YQSMESKGGD RTKLGLGQIT LESRMNKIYG KDATDQKQFQ KNEAEFLLIA VQMITEASRF 190 200 210 220 230 240 KYIENKVKDS FDDAIGYKPD PKAISLETSW DKISNAIAKV NTPGNSIVTL PKGLLDENKK 250 260 PWTTATMDEL KNDIMGLLTH VTCKIK

References

[1]

"Type 1 ribosome-inactivating proteins from Phytolacca dioica L. leaves: differential seasonal and age expression, and cellular localization." Parente A., Conforto B., Di Maro A., Chambery A., De Luca P., Bolognesi A., Iriti M., Faoro F. Planta 228:963-975(2008) [PubMed: 18704492] [Abstract] Cited for: PROTEIN SEQUENCE, FUNCTION, CATALYTIC ACTIVITY, SUBCELLULAR LOCATION, DEVELOPMENTAL STAGE, MASS SPECTROMETRY, DISULFIDE BONDS. Tissue: Leaf.

Cross-references

3D structure databases
ModBase	Search...
Family and domain databases
InterPro	IPR001574. Ribosome_inactivat_prot. IPR017988. Ribosome_inactivat_prot_CS. IPR016138. Ribosome_inactivat_prot_sub1. IPR016139. Ribosome_inactivat_prot_sub2. IPR017989. Ribosome_inactivat_prot_subgr. [Graphical view]
Gene3D	G3DSA:3.40.420.10. Ribosome_inactivat_prot_sub1. 1 hit. G3DSA:4.10.470.10. Ribosome_inactivat_prot_sub2. 1 hit.
Pfam	PF00161. RIP. 1 hit. [Graphical view]
PRINTS	PR00396. SHIGARICIN.
PROSITE	PS00275. SHIGA_RICIN. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RIPD2_PHYDI

Accession

Primary (citable) accession number: P85208

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 5, 2009
Last sequence update:	May 5, 2009
Last modified:	June 16, 2009
This is version 2 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)