AFE_2297 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_2297

Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409. (232 aa)

Predicted Functional Partners:

AFE_2298

0.587

AFE_0622

0.487

AFE_1499

0.482

AFE_0770

0.478

AFE_1786

0.456

AFE_3230

0.443

AFE_2303

0.433

AFE_2299

0.431

AFE_3229

0.426

AFE_2304

0.415

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 annotation	node2 annotation	score
AFE_0622	AFE_2297	Conserved hypothetical protein; Identified by similarity to GB:BAC65281.1.	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	0.487
AFE_0770	AFE_1786	Identified by match to protein family HMM TIGR01352.	Conserved hypothetical protein; Identified by similarity to GB:CAD16844.1.	0.591
AFE_0770	AFE_2297	Identified by match to protein family HMM TIGR01352.	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	0.478
AFE_0770	AFE_2298	Identified by match to protein family HMM TIGR01352.	TonB-dependent receptor; Identified by match to protein family HMM PF00593; match to protein family HMM PF07715.	0.439
AFE_0770	AFE_2299	Identified by match to protein family HMM TIGR01352.	MotA/TolQ/ExbB proton channel family protein; Identified by match to protein family HMM PF01618.	0.442
AFE_0770	AFE_3229	Identified by match to protein family HMM TIGR01352.	TonB-dependent receptor; Identified by match to protein family HMM PF00593; match to protein family HMM PF07715.	0.832
AFE_0770	AFE_3230	Identified by match to protein family HMM TIGR01352.	Hypothetical protein; Identified by glimmer; putative.	0.745
AFE_1499	AFE_2297	ATPase, AAA family; Identified by match to protein family HMM PF00004.	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	0.482
AFE_1786	AFE_0770	Conserved hypothetical protein; Identified by similarity to GB:CAD16844.1.	Identified by match to protein family HMM TIGR01352.	0.591
AFE_1786	AFE_2297	Conserved hypothetical protein; Identified by similarity to GB:CAD16844.1.	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	0.456
AFE_2297	AFE_0622	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	Conserved hypothetical protein; Identified by similarity to GB:BAC65281.1.	0.487
AFE_2297	AFE_0770	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	Identified by match to protein family HMM TIGR01352.	0.478
AFE_2297	AFE_1499	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	ATPase, AAA family; Identified by match to protein family HMM PF00004.	0.482
AFE_2297	AFE_1786	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	Conserved hypothetical protein; Identified by similarity to GB:CAD16844.1.	0.456
AFE_2297	AFE_2298	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	TonB-dependent receptor; Identified by match to protein family HMM PF00593; match to protein family HMM PF07715.	0.587
AFE_2297	AFE_2299	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	MotA/TolQ/ExbB proton channel family protein; Identified by match to protein family HMM PF01618.	0.431
AFE_2297	AFE_2303	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	Conserved hypothetical protein; Identified by similarity to PIR:AG1979.	0.433
AFE_2297	AFE_2304	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	Identified by match to protein family HMM TIGR01352.	0.415
AFE_2297	AFE_3229	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	TonB-dependent receptor; Identified by match to protein family HMM PF00593; match to protein family HMM PF07715.	0.426
AFE_2297	AFE_3230	Identified by match to protein family HMM PF04185; match to protein family HMM TIGR01409.	Hypothetical protein; Identified by glimmer; putative.	0.443