AFE_2125 protein (Acidithiobacillus ferrooxidans)

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

AFE_2125

Identified by match to protein family HMM PF00494. (347 aa)

Predicted Functional Partners:

shc

0.954

AFE_2123

0.939

ispA

0.920

AFE_2122

0.910

ispB

0.891

AFE_2118

0.837

uppS

0.828

AFE_2120

0.790

gap

0.779

AFE_2115

0.775

Your Current Organism:

Acidithiobacillus ferrooxidans

NCBI taxonomy Id: 243159
Other names: A. ferrooxidans ATCC 23270, Acidithiobacillus ferrooxidans ATCC 23270, Acidithiobacillus ferrooxidans str. ATCC 23270

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
AFE_2115	AFE_2118	AFE_2115	AFE_2118	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03470.	Membrane protein, putative; Identified by similarity to GB:CAD85670.1; match to protein family HMM TIGR03480.	0.909
AFE_2115	AFE_2120	AFE_2115	AFE_2120	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03470.	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03471.	0.870
AFE_2115	AFE_2122	AFE_2115	AFE_2122	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03470.	Conserved hypothetical protein; Identified by match to protein family HMM PF00106; match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF04321; match to protein family HMM PF05368; match to protein family HMM PF07993; match to protein family HMM TIGR03466.	0.851
AFE_2115	AFE_2123	AFE_2115	AFE_2123	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03470.	MTA/SAH nucleosidase, putative; Identified by similarity to SP:P24247; match to protein family HMM PF01048; match to protein family HMM TIGR03468.	0.864
AFE_2115	AFE_2125	AFE_2115	AFE_2125	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03470.	Identified by match to protein family HMM PF00494.	0.775
AFE_2115	shc	AFE_2115	AFE_2124	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03470.	Squalene-hopene cyclase; Identified by similarity to SP:P33990; match to protein family HMM PF00432; match to protein family HMM TIGR01507; match to protein family HMM TIGR01787.	0.880
AFE_2118	AFE_2115	AFE_2118	AFE_2115	Membrane protein, putative; Identified by similarity to GB:CAD85670.1; match to protein family HMM TIGR03480.	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03470.	0.909
AFE_2118	AFE_2120	AFE_2118	AFE_2120	Membrane protein, putative; Identified by similarity to GB:CAD85670.1; match to protein family HMM TIGR03480.	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03471.	0.874
AFE_2118	AFE_2122	AFE_2118	AFE_2122	Membrane protein, putative; Identified by similarity to GB:CAD85670.1; match to protein family HMM TIGR03480.	Conserved hypothetical protein; Identified by match to protein family HMM PF00106; match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF04321; match to protein family HMM PF05368; match to protein family HMM PF07993; match to protein family HMM TIGR03466.	0.883
AFE_2118	AFE_2123	AFE_2118	AFE_2123	Membrane protein, putative; Identified by similarity to GB:CAD85670.1; match to protein family HMM TIGR03480.	MTA/SAH nucleosidase, putative; Identified by similarity to SP:P24247; match to protein family HMM PF01048; match to protein family HMM TIGR03468.	0.901
AFE_2118	AFE_2125	AFE_2118	AFE_2125	Membrane protein, putative; Identified by similarity to GB:CAD85670.1; match to protein family HMM TIGR03480.	Identified by match to protein family HMM PF00494.	0.837
AFE_2118	shc	AFE_2118	AFE_2124	Membrane protein, putative; Identified by similarity to GB:CAD85670.1; match to protein family HMM TIGR03480.	Squalene-hopene cyclase; Identified by similarity to SP:P33990; match to protein family HMM PF00432; match to protein family HMM TIGR01507; match to protein family HMM TIGR01787.	0.900
AFE_2120	AFE_2115	AFE_2120	AFE_2115	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03471.	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03470.	0.870
AFE_2120	AFE_2118	AFE_2120	AFE_2118	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03471.	Membrane protein, putative; Identified by similarity to GB:CAD85670.1; match to protein family HMM TIGR03480.	0.874
AFE_2120	AFE_2122	AFE_2120	AFE_2122	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03471.	Conserved hypothetical protein; Identified by match to protein family HMM PF00106; match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF04321; match to protein family HMM PF05368; match to protein family HMM PF07993; match to protein family HMM TIGR03466.	0.897
AFE_2120	AFE_2123	AFE_2120	AFE_2123	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03471.	MTA/SAH nucleosidase, putative; Identified by similarity to SP:P24247; match to protein family HMM PF01048; match to protein family HMM TIGR03468.	0.834
AFE_2120	AFE_2125	AFE_2120	AFE_2125	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03471.	Identified by match to protein family HMM PF00494.	0.790
AFE_2120	shc	AFE_2120	AFE_2124	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03471.	Squalene-hopene cyclase; Identified by similarity to SP:P33990; match to protein family HMM PF00432; match to protein family HMM TIGR01507; match to protein family HMM TIGR01787.	0.915
AFE_2122	AFE_2115	AFE_2122	AFE_2115	Conserved hypothetical protein; Identified by match to protein family HMM PF00106; match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF04321; match to protein family HMM PF05368; match to protein family HMM PF07993; match to protein family HMM TIGR03466.	Radical SAM domain protein; Identified by match to protein family HMM PF04055; match to protein family HMM TIGR03470.	0.851
AFE_2122	AFE_2118	AFE_2122	AFE_2118	Conserved hypothetical protein; Identified by match to protein family HMM PF00106; match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF04321; match to protein family HMM PF05368; match to protein family HMM PF07993; match to protein family HMM TIGR03466.	Membrane protein, putative; Identified by similarity to GB:CAD85670.1; match to protein family HMM TIGR03480.	0.883