ampD protein (Bordetella avium) - STRING interaction network

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

ampD

N-acetylmuramoyl-L-alanine amidase. (203 aa)

Predicted Functional Partners:

BAV0451

0.835

BAV0450

0.810

BAV0448

0.780

ffh

0.623

mpl

0.618

nagZ

0.613

anmK

0.585

ampG

0.527

sugE

0.444

murE

0.424

Your Current Organism:

Bordetella avium

NCBI taxonomy Id: 360910
Other names: B. avium 197N, Bordetella avium 197N, Bordetella avium str. 197N, Bordetella avium strain 197N

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
BAV0448	BAV0450	BAV0448	BAV0450	Glutathione S-transferase.	Putative exported protein.	0.639
BAV0448	BAV0451	BAV0448	BAV0451	Glutathione S-transferase.	Putative cytochrome assembly protein.	0.639
BAV0448	ampD	BAV0448	BAV0449	Glutathione S-transferase.	N-acetylmuramoyl-L-alanine amidase.	0.780
BAV0448	ffh	BAV0448	BAV0452	Glutathione S-transferase.	Signal recognition particle protein; Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY. Interaction with FtsY leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex into the individual componen [...]	0.462
BAV0450	BAV0448	BAV0450	BAV0448	Putative exported protein.	Glutathione S-transferase.	0.639
BAV0450	BAV0451	BAV0450	BAV0451	Putative exported protein.	Putative cytochrome assembly protein.	0.912
BAV0450	ampD	BAV0450	BAV0449	Putative exported protein.	N-acetylmuramoyl-L-alanine amidase.	0.810
BAV0450	ffh	BAV0450	BAV0452	Putative exported protein.	Signal recognition particle protein; Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY. Interaction with FtsY leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex into the individual componen [...]	0.621
BAV0451	BAV0448	BAV0451	BAV0448	Putative cytochrome assembly protein.	Glutathione S-transferase.	0.639
BAV0451	BAV0450	BAV0451	BAV0450	Putative cytochrome assembly protein.	Putative exported protein.	0.912
BAV0451	ampD	BAV0451	BAV0449	Putative cytochrome assembly protein.	N-acetylmuramoyl-L-alanine amidase.	0.835
BAV0451	ffh	BAV0451	BAV0452	Putative cytochrome assembly protein.	Signal recognition particle protein; Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY. Interaction with FtsY leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex into the individual componen [...]	0.743
ampD	BAV0448	BAV0449	BAV0448	N-acetylmuramoyl-L-alanine amidase.	Glutathione S-transferase.	0.780
ampD	BAV0450	BAV0449	BAV0450	N-acetylmuramoyl-L-alanine amidase.	Putative exported protein.	0.810
ampD	BAV0451	BAV0449	BAV0451	N-acetylmuramoyl-L-alanine amidase.	Putative cytochrome assembly protein.	0.835
ampD	ampG	BAV0449	BAV3185	N-acetylmuramoyl-L-alanine amidase.	Integral membrane signal transducer protein (peptidoglycan recycling); Start codon not provided.	0.527
ampD	anmK	BAV0449	BAV2965	N-acetylmuramoyl-L-alanine amidase.	Conserved hypothetical protein; Catalyzes the specific phosphorylation of 1,6-anhydro-N- acetylmuramic acid (anhMurNAc) with the simultaneous cleavage of the 1,6-anhydro ring, generating MurNAc-6-P. Is required for the utilization of anhMurNAc either imported from the medium or derived from its own cell wall murein, and thus plays a role in cell wall recycling; Belongs to the anhydro-N-acetylmuramic acid kinase family.	0.585
ampD	ffh	BAV0449	BAV0452	N-acetylmuramoyl-L-alanine amidase.	Signal recognition particle protein; Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY. Interaction with FtsY leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex into the individual componen [...]	0.623
ampD	mpl	BAV0449	BAV3000	N-acetylmuramoyl-L-alanine amidase.	UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Reutilizes the intact tripeptide L-alanyl-gamma-D-glutamyl- meso-diaminopimelate by linking it to UDP-N-acetylmuramate. Belongs to the MurCDEF family. Mpl subfamily.	0.618
ampD	murE	BAV0449	BAV2883	N-acetylmuramoyl-L-alanine amidase.	UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanyl-D-glutamate (UMAG) in the biosynthesis of bacterial cell-wall peptidoglycan. Belongs to the MurCDEF family. MurE subfamily.	0.424