(10 nodes) Mixed, incl. NusB family, and Histidine kinase network (Streptococcus iniae)

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:
	APD32356.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (118 aa)
	APD32357.1	Peptidylprolyl isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology. (466 aa)
	APD32358.1	DNA-binding response regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (214 aa)
	APD32359.1	Two-component sensor histidine kinase; Derived by automated computational analysis using gene prediction method: Protein Homology. (334 aa)
	APD32360.1	Transporter; Derived by automated computational analysis using gene prediction method: Protein Homology. (231 aa)
	pknB	Serine/threonine protein kinase; Derived by automated computational analysis using gene prediction method: Protein Homology. (634 aa)
	APD32362.1	Protein phosphatase; Derived by automated computational analysis using gene prediction method: Protein Homology. (246 aa)
	APD32363.1	16S rRNA (cytosine(967)-C(5))-methyltransferase; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA. (440 aa)
	fmt	methionyl-tRNA formyltransferase; Attaches a formyl group to the free amino group of methionyl- tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus; Belongs to the Fmt family. (311 aa)
	priA	Primosomal protein N; Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA; Belongs to the helicase family. PriA subfamily. (795 aa)

Your Current Organism:

Streptococcus iniae

NCBI taxonomy Id: 1346
Other names: ATCC 29178, CCUG 27303, CIP 102508, DSM 20576, LMG 14520, LMG:14520, S. iniae, Streptococcus shiloi, strain PW

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
APD32356.1	APD32357.1	BMF34_07740	BMF34_07745	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptidylprolyl isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.795
APD32356.1	APD32358.1	BMF34_07740	BMF34_07750	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-binding response regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.703
APD32356.1	APD32359.1	BMF34_07740	BMF34_07755	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Two-component sensor histidine kinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.703
APD32356.1	APD32360.1	BMF34_07740	BMF34_07760	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.720
APD32356.1	APD32362.1	BMF34_07740	BMF34_07770	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Protein phosphatase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.502
APD32356.1	APD32363.1	BMF34_07740	BMF34_07775	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	16S rRNA (cytosine(967)-C(5))-methyltransferase; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA.	0.576
APD32356.1	fmt	BMF34_07740	BMF34_07780	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	methionyl-tRNA formyltransferase; Attaches a formyl group to the free amino group of methionyl- tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus; Belongs to the Fmt family.	0.449
APD32356.1	pknB	BMF34_07740	BMF34_07765	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Serine/threonine protein kinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.579
APD32356.1	priA	BMF34_07740	BMF34_07785	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Primosomal protein N; Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA; Belongs to the helicase family. PriA subfamily.	0.474
APD32357.1	APD32356.1	BMF34_07745	BMF34_07740	Peptidylprolyl isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.795
APD32357.1	APD32358.1	BMF34_07745	BMF34_07750	Peptidylprolyl isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-binding response regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.703
APD32357.1	APD32359.1	BMF34_07745	BMF34_07755	Peptidylprolyl isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Two-component sensor histidine kinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.704
APD32357.1	APD32360.1	BMF34_07745	BMF34_07760	Peptidylprolyl isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.703
APD32357.1	APD32362.1	BMF34_07745	BMF34_07770	Peptidylprolyl isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Protein phosphatase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.502
APD32357.1	APD32363.1	BMF34_07745	BMF34_07775	Peptidylprolyl isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	16S rRNA (cytosine(967)-C(5))-methyltransferase; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA.	0.449
APD32357.1	fmt	BMF34_07745	BMF34_07780	Peptidylprolyl isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	methionyl-tRNA formyltransferase; Attaches a formyl group to the free amino group of methionyl- tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus; Belongs to the Fmt family.	0.449
APD32357.1	pknB	BMF34_07745	BMF34_07765	Peptidylprolyl isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Serine/threonine protein kinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.594
APD32358.1	APD32356.1	BMF34_07750	BMF34_07740	DNA-binding response regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.703
APD32358.1	APD32357.1	BMF34_07750	BMF34_07745	DNA-binding response regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptidylprolyl isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.703
APD32358.1	APD32359.1	BMF34_07750	BMF34_07755	DNA-binding response regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Two-component sensor histidine kinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.991