SMD17758.1 protein (Pedobacter nyackensis) - 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

SMD17758.1

Beta-barrel assembly machine subunit BamD. (309 aa)

Predicted Functional Partners:

SMD07056.1

0.983

SMC54493.1

0.971

SMD17763.1

0.950

SMC71072.1

0.943

SMD12863.1

0.940

SMD17403.1

0.933

SMC90451.1

0.929

SMD12580.1

0.929

SMC68401.1

0.924

SMC73702.1

0.924

Your Current Organism:

Pedobacter nyackensis

NCBI taxonomy Id: 475255
Other names: DSM 19625, LMG 24260, LMG:24260, P. nyackensis, Pedobacter nyackensis Gordon et al. 2009, strain NWG-II14

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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SMC54493.1	SMC68401.1	SAMN04488101_101249	SAMN04488101_102157	Outer membrane protein assembly factor BamA.	Putative binding domain-containing protein, N-terminal.	0.589
SMC54493.1	SMC73702.1	SAMN04488101_101249	SAMN04488101_102588	Outer membrane protein assembly factor BamA.	Outer membrane protein assembly factor BamB, contains PQQ-like beta-propeller repeat.	0.589
SMC54493.1	SMD07056.1	SAMN04488101_101249	SAMN04488101_11189	Outer membrane protein assembly factor BamA.	Beta-barrel assembly machine subunit BamA.	0.708
SMC54493.1	SMD17403.1	SAMN04488101_101249	SAMN04488101_12312	Outer membrane protein assembly factor BamA.	Outer membrane protein assembly factor BamB, contains PQQ-like beta-propeller repeat.	0.589
SMC54493.1	SMD17758.1	SAMN04488101_101249	SAMN04488101_12410	Outer membrane protein assembly factor BamA.	Beta-barrel assembly machine subunit BamD.	0.971
SMC54493.1	SMD17763.1	SAMN04488101_101249	SAMN04488101_12411	Outer membrane protein assembly factor BamA.	RNA polymerase Rpb6.	0.698
SMC68401.1	SMC54493.1	SAMN04488101_102157	SAMN04488101_101249	Putative binding domain-containing protein, N-terminal.	Outer membrane protein assembly factor BamA.	0.589
SMC68401.1	SMC71072.1	SAMN04488101_102157	SAMN04488101_102377	Putative binding domain-containing protein, N-terminal.	Surface antigen.	0.589
SMC68401.1	SMC90451.1	SAMN04488101_102157	SAMN04488101_105118	Putative binding domain-containing protein, N-terminal.	Outer membrane protein assembly factor BamA.	0.648
SMC68401.1	SMD07056.1	SAMN04488101_102157	SAMN04488101_11189	Putative binding domain-containing protein, N-terminal.	Beta-barrel assembly machine subunit BamA.	0.589
SMC68401.1	SMD12580.1	SAMN04488101_102157	SAMN04488101_11568	Putative binding domain-containing protein, N-terminal.	Surface antigen.	0.589
SMC68401.1	SMD12863.1	SAMN04488101_102157	SAMN04488101_115115	Putative binding domain-containing protein, N-terminal.	Surface antigen.	0.589
SMC68401.1	SMD17758.1	SAMN04488101_102157	SAMN04488101_12410	Putative binding domain-containing protein, N-terminal.	Beta-barrel assembly machine subunit BamD.	0.924
SMC71072.1	SMC68401.1	SAMN04488101_102377	SAMN04488101_102157	Surface antigen.	Putative binding domain-containing protein, N-terminal.	0.589
SMC71072.1	SMC73702.1	SAMN04488101_102377	SAMN04488101_102588	Surface antigen.	Outer membrane protein assembly factor BamB, contains PQQ-like beta-propeller repeat.	0.589
SMC71072.1	SMD17403.1	SAMN04488101_102377	SAMN04488101_12312	Surface antigen.	Outer membrane protein assembly factor BamB, contains PQQ-like beta-propeller repeat.	0.589
SMC71072.1	SMD17758.1	SAMN04488101_102377	SAMN04488101_12410	Surface antigen.	Beta-barrel assembly machine subunit BamD.	0.943
SMC73702.1	SMC54493.1	SAMN04488101_102588	SAMN04488101_101249	Outer membrane protein assembly factor BamB, contains PQQ-like beta-propeller repeat.	Outer membrane protein assembly factor BamA.	0.589
SMC73702.1	SMC71072.1	SAMN04488101_102588	SAMN04488101_102377	Outer membrane protein assembly factor BamB, contains PQQ-like beta-propeller repeat.	Surface antigen.	0.589
SMC73702.1	SMC90451.1	SAMN04488101_102588	SAMN04488101_105118	Outer membrane protein assembly factor BamB, contains PQQ-like beta-propeller repeat.	Outer membrane protein assembly factor BamA.	0.589