ydhO protein (Salmonella enterica Typhimurium)

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.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

ydhO

Putative cell wall-associated hydrolase; Similar to E. coli putative lipoprotein (AAC74727.1); Blastp hit to AAC74727.1 (271 aa), 72% identity in aa 1 - 271. (284 aa)

Predicted Functional Partners:

yebA

0.906

yedA

0.766

ybiS

0.759

pbpG

0.617

sodB

0.552

erfK

0.538

prc

0.469

mepA

0.456

rlpA

0.454

dacD

0.453

Your Current Organism:

Salmonella enterica Typhimurium

NCBI taxonomy Id: 99287
Other names: S. enterica subsp. enterica serovar Typhimurium str. LT2, Salmonella enterica subsp. enterica serovar Typhimurium LT2, Salmonella enterica subsp. enterica serovar Typhimurium str. LT2, Salmonella enterica subsp. enterica serovar Typhimurium strain LT2, Salmonella enterica subsp. enterica serovar Typhimurium strain LT2-LTL2, Salmonella typhimurium LT2

Send network to Cytoscape

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
dacD	erfK	STM2062	STM2015	DD-carboxypeptidase; Removes C-terminal D-alanyl residues from sugar-peptide cell wall precursors; Belongs to the peptidase S11 family.	Putative periplasmic protein; Protein ERKF/SRFK precursor. (SW:ERFK_SALTY); Belongs to the YkuD family.	0.592
dacD	ybiS	STM2062	STM0837	DD-carboxypeptidase; Removes C-terminal D-alanyl residues from sugar-peptide cell wall precursors; Belongs to the peptidase S11 family.	Putative periplasmic protein; Similar to E. coli orf, hypothetical protein (AAC73906.1); Blastp hit to AAC73906.1 (306 aa), 92% identity in aa 1 - 306.	0.621
dacD	ydhO	STM2062	STM1432	DD-carboxypeptidase; Removes C-terminal D-alanyl residues from sugar-peptide cell wall precursors; Belongs to the peptidase S11 family.	Putative cell wall-associated hydrolase; Similar to E. coli putative lipoprotein (AAC74727.1); Blastp hit to AAC74727.1 (271 aa), 72% identity in aa 1 - 271.	0.453
erfK	dacD	STM2015	STM2062	Putative periplasmic protein; Protein ERKF/SRFK precursor. (SW:ERFK_SALTY); Belongs to the YkuD family.	DD-carboxypeptidase; Removes C-terminal D-alanyl residues from sugar-peptide cell wall precursors; Belongs to the peptidase S11 family.	0.592
erfK	rlpA	STM2015	STM0638	Putative periplasmic protein; Protein ERKF/SRFK precursor. (SW:ERFK_SALTY); Belongs to the YkuD family.	A minor lipoprotein; Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides; Belongs to the RlpA family.	0.444
erfK	ydhO	STM2015	STM1432	Putative periplasmic protein; Protein ERKF/SRFK precursor. (SW:ERFK_SALTY); Belongs to the YkuD family.	Putative cell wall-associated hydrolase; Similar to E. coli putative lipoprotein (AAC74727.1); Blastp hit to AAC74727.1 (271 aa), 72% identity in aa 1 - 271.	0.538
erfK	yebA	STM2015	STM1890	Putative periplasmic protein; Protein ERKF/SRFK precursor. (SW:ERFK_SALTY); Belongs to the YkuD family.	Putative peptidase; Similar to E. coli orf, hypothetical protein (AAC74926.1); Blastp hit to AAC74926.1 (419 aa), 91% identity in aa 1 - 419.	0.481
mepA	ydhO	STM2383	STM1432	Penicillin-insensitive murein DD-endopeptidase; Murein endopeptidase that cleaves the D-alanyl-meso-2,6- diamino-pimelyl amide bond that connects peptidoglycan strands. Likely plays a role in the removal of murein from the sacculus. Belongs to the peptidase M74 family.	Putative cell wall-associated hydrolase; Similar to E. coli putative lipoprotein (AAC74727.1); Blastp hit to AAC74727.1 (271 aa), 72% identity in aa 1 - 271.	0.456
mepA	yedA	STM2383	STM1990	Penicillin-insensitive murein DD-endopeptidase; Murein endopeptidase that cleaves the D-alanyl-meso-2,6- diamino-pimelyl amide bond that connects peptidoglycan strands. Likely plays a role in the removal of murein from the sacculus. Belongs to the peptidase M74 family.	Similar to E. coli putative transmembrane subunit (AAC75025.1); Blastp hit to AAC75025.1 (306 aa), 89% identity in aa 1 - 298.	0.831
pbpG	ydhO	STM2168	STM1432	D-alanyl-D-alanine endopeptidase; Penicillin-binding protein 7 and penicillin-binding protein 8; similar to E. coli penicillin-binding protein 7 (AAC75195.1); Blastp hit to AAC75195.1 (313 aa), 92% identity in aa 4 - 313; Belongs to the peptidase S11 family.	Putative cell wall-associated hydrolase; Similar to E. coli putative lipoprotein (AAC74727.1); Blastp hit to AAC74727.1 (271 aa), 72% identity in aa 1 - 271.	0.617
pbpG	yebA	STM2168	STM1890	D-alanyl-D-alanine endopeptidase; Penicillin-binding protein 7 and penicillin-binding protein 8; similar to E. coli penicillin-binding protein 7 (AAC75195.1); Blastp hit to AAC75195.1 (313 aa), 92% identity in aa 4 - 313; Belongs to the peptidase S11 family.	Putative peptidase; Similar to E. coli orf, hypothetical protein (AAC74926.1); Blastp hit to AAC74926.1 (419 aa), 91% identity in aa 1 - 419.	0.720
pbpG	yedA	STM2168	STM1990	D-alanyl-D-alanine endopeptidase; Penicillin-binding protein 7 and penicillin-binding protein 8; similar to E. coli penicillin-binding protein 7 (AAC75195.1); Blastp hit to AAC75195.1 (313 aa), 92% identity in aa 4 - 313; Belongs to the peptidase S11 family.	Similar to E. coli putative transmembrane subunit (AAC75025.1); Blastp hit to AAC75025.1 (306 aa), 89% identity in aa 1 - 298.	0.470
prc	ydhO	STM1845	STM1432	Carboxy-terminal protease for penicillin-binding protein 3; Involved in the cleavage of a C-terminal peptide of 11 residues from the precursor form of penicillin-binding protein 3 (PBP3). May be involved in protection of the bacterium from thermal and osmotic stresses (By similarity).	Putative cell wall-associated hydrolase; Similar to E. coli putative lipoprotein (AAC74727.1); Blastp hit to AAC74727.1 (271 aa), 72% identity in aa 1 - 271.	0.469
prc	yebA	STM1845	STM1890	Carboxy-terminal protease for penicillin-binding protein 3; Involved in the cleavage of a C-terminal peptide of 11 residues from the precursor form of penicillin-binding protein 3 (PBP3). May be involved in protection of the bacterium from thermal and osmotic stresses (By similarity).	Putative peptidase; Similar to E. coli orf, hypothetical protein (AAC74926.1); Blastp hit to AAC74926.1 (419 aa), 91% identity in aa 1 - 419.	0.540
prc	yedA	STM1845	STM1990	Carboxy-terminal protease for penicillin-binding protein 3; Involved in the cleavage of a C-terminal peptide of 11 residues from the precursor form of penicillin-binding protein 3 (PBP3). May be involved in protection of the bacterium from thermal and osmotic stresses (By similarity).	Similar to E. coli putative transmembrane subunit (AAC75025.1); Blastp hit to AAC75025.1 (306 aa), 89% identity in aa 1 - 298.	0.484
rlpA	erfK	STM0638	STM2015	A minor lipoprotein; Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides; Belongs to the RlpA family.	Putative periplasmic protein; Protein ERKF/SRFK precursor. (SW:ERFK_SALTY); Belongs to the YkuD family.	0.444
rlpA	ybiS	STM0638	STM0837	A minor lipoprotein; Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides; Belongs to the RlpA family.	Putative periplasmic protein; Similar to E. coli orf, hypothetical protein (AAC73906.1); Blastp hit to AAC73906.1 (306 aa), 92% identity in aa 1 - 306.	0.451
rlpA	ydhO	STM0638	STM1432	A minor lipoprotein; Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides; Belongs to the RlpA family.	Putative cell wall-associated hydrolase; Similar to E. coli putative lipoprotein (AAC74727.1); Blastp hit to AAC74727.1 (271 aa), 72% identity in aa 1 - 271.	0.454
rlpA	yebA	STM0638	STM1890	A minor lipoprotein; Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides; Belongs to the RlpA family.	Putative peptidase; Similar to E. coli orf, hypothetical protein (AAC74926.1); Blastp hit to AAC74926.1 (419 aa), 91% identity in aa 1 - 419.	0.523
sodB	ydhO	STM1431	STM1432	Iron superoxide dismutase; Destroys superoxide anion radicals which are normally produced within the cells and which are toxic to biological systems; Belongs to the iron/manganese superoxide dismutase family.	Putative cell wall-associated hydrolase; Similar to E. coli putative lipoprotein (AAC74727.1); Blastp hit to AAC74727.1 (271 aa), 72% identity in aa 1 - 271.	0.552

page 1 of 3

Server load: medium (62%) [HD]

Permalink

Network

Neighborhood

Experiments

Cooccurrence

Databases

Coexpression

Textmining

Fusion

© STRING Consortium 2025

Credits

Access

Info

About