ybeY protein (Clostridium thermoalcaliphilum)

Nodes:

Network nodes represent proteins

splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

Node Color

colored nodes:
query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

empty nodes:
proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.

Knowledge-based Evidence

from curated databases

textmining

Assay-based Predictions

experimentally determined

co-expression

Genomic Predictions

gene neighborhood

gene co-occurrence

gene fusions

Your Input:

Neighborhood

Gene Fusion

Co-occurrence

Co-expression

Experiments

Databases

Textmining

[Homology]

Score

ybeY

Endoribonuclease YbeY; Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA. (150 aa)

Predicted Functional Partners:

era

0.989

dgkA

0.986

ybeZ

0.985

cdd

0.960

rny_1

0.865

rplQ

0.847

rplU

0.822

rplX

0.811

rplO

0.808

OPJ56990.1

0.807

Your Current Organism:

Clostridium thermoalcaliphilum

NCBI taxonomy Id: 29349
Other names: ATCC 51508, CIP 105528, DSM 7309, [. thermoalcaliphilum, [Clostridium] thermoalcaliphilum, strain JW/YL23-2

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc.

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

a tab-delimited file containing all known functional terms of proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
OPJ56990.1	cdd	CLOTH_02720	CLOTH_02780	Putative stage IV sporulation protein YqfD.	Cytidine deaminase; This enzyme scavenges exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis; Belongs to the cytidine and deoxycytidylate deaminase family.	0.611
OPJ56990.1	dgkA	CLOTH_02720	CLOTH_02760	Putative stage IV sporulation protein YqfD.	Undecaprenol kinase.	0.807
OPJ56990.1	era	CLOTH_02720	CLOTH_02790	Putative stage IV sporulation protein YqfD.	GTPase Era; An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.	0.596
OPJ56990.1	rny_1	CLOTH_02720	CLOTH_02740	Putative stage IV sporulation protein YqfD.	Ribonuclease Y.	0.807
OPJ56990.1	ybeY	CLOTH_02720	CLOTH_02750	Putative stage IV sporulation protein YqfD.	Endoribonuclease YbeY; Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA.	0.807
OPJ56990.1	ybeZ	CLOTH_02720	CLOTH_02730	Putative stage IV sporulation protein YqfD.	PhoH-like protein.	0.842
cdd	OPJ56990.1	CLOTH_02780	CLOTH_02720	Cytidine deaminase; This enzyme scavenges exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis; Belongs to the cytidine and deoxycytidylate deaminase family.	Putative stage IV sporulation protein YqfD.	0.611
cdd	dgkA	CLOTH_02780	CLOTH_02760	Cytidine deaminase; This enzyme scavenges exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis; Belongs to the cytidine and deoxycytidylate deaminase family.	Undecaprenol kinase.	0.629
cdd	era	CLOTH_02780	CLOTH_02790	Cytidine deaminase; This enzyme scavenges exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis; Belongs to the cytidine and deoxycytidylate deaminase family.	GTPase Era; An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.	0.870
cdd	rny_1	CLOTH_02780	CLOTH_02740	Cytidine deaminase; This enzyme scavenges exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis; Belongs to the cytidine and deoxycytidylate deaminase family.	Ribonuclease Y.	0.629
cdd	ybeY	CLOTH_02780	CLOTH_02750	Cytidine deaminase; This enzyme scavenges exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis; Belongs to the cytidine and deoxycytidylate deaminase family.	Endoribonuclease YbeY; Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA.	0.960
cdd	ybeZ	CLOTH_02780	CLOTH_02730	Cytidine deaminase; This enzyme scavenges exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis; Belongs to the cytidine and deoxycytidylate deaminase family.	PhoH-like protein.	0.689
dgkA	OPJ56990.1	CLOTH_02760	CLOTH_02720	Undecaprenol kinase.	Putative stage IV sporulation protein YqfD.	0.807
dgkA	cdd	CLOTH_02760	CLOTH_02780	Undecaprenol kinase.	Cytidine deaminase; This enzyme scavenges exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis; Belongs to the cytidine and deoxycytidylate deaminase family.	0.629
dgkA	era	CLOTH_02760	CLOTH_02790	Undecaprenol kinase.	GTPase Era; An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.	0.729
dgkA	rny_1	CLOTH_02760	CLOTH_02740	Undecaprenol kinase.	Ribonuclease Y.	0.867
dgkA	ybeY	CLOTH_02760	CLOTH_02750	Undecaprenol kinase.	Endoribonuclease YbeY; Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA.	0.986
dgkA	ybeZ	CLOTH_02760	CLOTH_02730	Undecaprenol kinase.	PhoH-like protein.	0.835
era	OPJ56990.1	CLOTH_02790	CLOTH_02720	GTPase Era; An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.	Putative stage IV sporulation protein YqfD.	0.596
era	cdd	CLOTH_02790	CLOTH_02780	GTPase Era; An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.	Cytidine deaminase; This enzyme scavenges exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis; Belongs to the cytidine and deoxycytidylate deaminase family.	0.870

page 1 of 4

Server load: low (22%) [HD]

Permalink

Network

Neighborhood

Experiments

Fusion

Databases

Co-occurrence

Textmining

Co-expression

© STRING Consortium 2026

Credits

Access

Info

About