AFE_0018 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_0018

LysM domain protein; Identified by match to protein family HMM PF01476. (349 aa)

Predicted Functional Partners:

AFE_0735

0.960

AFE_2814

0.917

AFE_0737

0.897

AFE_0738

0.896

AFE_0739

0.891

topA

0.828

AFE_0017

0.805

smg

0.799

AFE_0115

0.782

AFE_0014

0.773

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_0014	AFE_0017	AFE_0014	AFE_0017	Ferredoxin; Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.	DNA processing protein DprA, putative; Identified by match to protein family HMM PF02481; match to protein family HMM TIGR00732.	0.773
AFE_0014	AFE_0018	AFE_0014	AFE_0018	Ferredoxin; Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.	LysM domain protein; Identified by match to protein family HMM PF01476.	0.773
AFE_0014	smg	AFE_0014	AFE_0016	Ferredoxin; Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.	Smg family protein; Belongs to the Smg family.	0.773
AFE_0014	topA	AFE_0014	AFE_0015	Ferredoxin; Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.	DNA topoisomerase I; Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA- (5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supe [...]	0.773
AFE_0017	AFE_0014	AFE_0017	AFE_0014	DNA processing protein DprA, putative; Identified by match to protein family HMM PF02481; match to protein family HMM TIGR00732.	Ferredoxin; Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.	0.773
AFE_0017	AFE_0018	AFE_0017	AFE_0018	DNA processing protein DprA, putative; Identified by match to protein family HMM PF02481; match to protein family HMM TIGR00732.	LysM domain protein; Identified by match to protein family HMM PF01476.	0.805
AFE_0017	smg	AFE_0017	AFE_0016	DNA processing protein DprA, putative; Identified by match to protein family HMM PF02481; match to protein family HMM TIGR00732.	Smg family protein; Belongs to the Smg family.	0.799
AFE_0017	topA	AFE_0017	AFE_0015	DNA processing protein DprA, putative; Identified by match to protein family HMM PF02481; match to protein family HMM TIGR00732.	DNA topoisomerase I; Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA- (5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supe [...]	0.892
AFE_0018	AFE_0014	AFE_0018	AFE_0014	LysM domain protein; Identified by match to protein family HMM PF01476.	Ferredoxin; Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.	0.773
AFE_0018	AFE_0017	AFE_0018	AFE_0017	LysM domain protein; Identified by match to protein family HMM PF01476.	DNA processing protein DprA, putative; Identified by match to protein family HMM PF02481; match to protein family HMM TIGR00732.	0.805
AFE_0018	AFE_0115	AFE_0018	AFE_0115	LysM domain protein; Identified by match to protein family HMM PF01476.	Conserved domain protein; Identified by match to protein family HMM PF03724.	0.782
AFE_0018	AFE_0735	AFE_0018	AFE_0735	LysM domain protein; Identified by match to protein family HMM PF01476.	Fimbrial assembly protein PilQ, putative; Identified by similarity to SP:P34750; match to protein family HMM PF00263; match to protein family HMM PF03958; match to protein family HMM PF07660; match to protein family HMM TIGR02515.	0.960
AFE_0018	AFE_0737	AFE_0018	AFE_0737	LysM domain protein; Identified by match to protein family HMM PF01476.	Fimbrial assembly protein PilO, putative; Identified by match to protein family HMM PF04350.	0.897
AFE_0018	AFE_0738	AFE_0018	AFE_0738	LysM domain protein; Identified by match to protein family HMM PF01476.	Type IV pilus biogenesis protein PilN; Identified by match to protein family HMM PF05137.	0.896
AFE_0018	AFE_0739	AFE_0018	AFE_0739	LysM domain protein; Identified by match to protein family HMM PF01476.	Type IV pilus assembly protein PilM; Identified by similarity to PIR:S77726; match to protein family HMM TIGR01175.	0.891
AFE_0018	AFE_2814	AFE_0018	AFE_2814	LysM domain protein; Identified by match to protein family HMM PF01476.	Hypothetical protein; Identified by glimmer; putative.	0.917
AFE_0018	smg	AFE_0018	AFE_0016	LysM domain protein; Identified by match to protein family HMM PF01476.	Smg family protein; Belongs to the Smg family.	0.799
AFE_0018	topA	AFE_0018	AFE_0015	LysM domain protein; Identified by match to protein family HMM PF01476.	DNA topoisomerase I; Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA- (5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supe [...]	0.828
AFE_0115	AFE_0018	AFE_0115	AFE_0018	Conserved domain protein; Identified by match to protein family HMM PF03724.	LysM domain protein; Identified by match to protein family HMM PF01476.	0.782
AFE_0735	AFE_0018	AFE_0735	AFE_0018	Fimbrial assembly protein PilQ, putative; Identified by similarity to SP:P34750; match to protein family HMM PF00263; match to protein family HMM PF03958; match to protein family HMM PF07660; match to protein family HMM TIGR02515.	LysM domain protein; Identified by match to protein family HMM PF01476.	0.960