AFE_3141 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_3141

Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738. (146 aa)

Predicted Functional Partners:

iscU

0.807

hscB

0.778

AFE_3142

0.746

cyoE-2

0.698

AFE_3144

0.670

AFE_1508

0.648

iscS-3

0.579

iscS-2

0.579

iscS-1

0.579

AFE_3139

0.511

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_1508	AFE_3141	AFE_1508	AFE_3141	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins.	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	0.648
AFE_1508	hscB	AFE_1508	AFE_0676	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins.	Co-chaperone Hsc20; Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA; Belongs to the HscB family.	0.964
AFE_1508	iscS-1	AFE_1508	AFE_1537	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins.	Cysteine desulfurase; Identified by similarity to SP:O54055; match to protein family HMM PF00266.	0.991
AFE_1508	iscS-2	AFE_1508	AFE_1507	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins.	Cysteine desulfurase; Catalyzes the removal of elemental sulfur atoms from cysteine to produce alanine.	0.998
AFE_1508	iscS-3	AFE_1508	AFE_0673	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins.	Cysteine desulfurase IscS; Master enzyme that delivers sulfur to a number of partners involved in Fe-S cluster assembly, tRNA modification or cofactor biosynthesis. Catalyzes the removal of elemental sulfur atoms from cysteine to produce alanine. Functions as a sulfur delivery protein for Fe-S cluster synthesis onto IscU, an Fe-S scaffold assembly protein, as well as other S acceptor proteins; Belongs to the class-V pyridoxal-phosphate-dependent aminotransferase family. NifS/IscS subfamily.	0.987
AFE_3139	AFE_3141	AFE_3139	AFE_3141	Hypothetical protein; Identified by glimmer; putative.	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	0.511
AFE_3139	AFE_3142	AFE_3139	AFE_3142	Hypothetical protein; Identified by glimmer; putative.	Major facilitator family transporter; Identified by match to protein family HMM PF00083; match to protein family HMM PF07690.	0.853
AFE_3139	AFE_3144	AFE_3139	AFE_3144	Hypothetical protein; Identified by glimmer; putative.	Membrane protein, putative.	0.840
AFE_3139	cyoE-2	AFE_3139	AFE_3143	Hypothetical protein; Identified by glimmer; putative.	Protoheme IX farnesyltransferase; Identified by similarity to SP:P56938; match to protein family HMM PF01040; match to protein family HMM TIGR01473.	0.467
AFE_3141	AFE_1508	AFE_3141	AFE_1508	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins.	0.648
AFE_3141	AFE_3139	AFE_3141	AFE_3139	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	Hypothetical protein; Identified by glimmer; putative.	0.511
AFE_3141	AFE_3142	AFE_3141	AFE_3142	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	Major facilitator family transporter; Identified by match to protein family HMM PF00083; match to protein family HMM PF07690.	0.746
AFE_3141	AFE_3144	AFE_3141	AFE_3144	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	Membrane protein, putative.	0.670
AFE_3141	cyoE-2	AFE_3141	AFE_3143	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	Protoheme IX farnesyltransferase; Identified by similarity to SP:P56938; match to protein family HMM PF01040; match to protein family HMM TIGR01473.	0.698
AFE_3141	hscB	AFE_3141	AFE_0676	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	Co-chaperone Hsc20; Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA; Belongs to the HscB family.	0.778
AFE_3141	iscS-1	AFE_3141	AFE_1537	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	Cysteine desulfurase; Identified by similarity to SP:O54055; match to protein family HMM PF00266.	0.579
AFE_3141	iscS-2	AFE_3141	AFE_1507	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	Cysteine desulfurase; Catalyzes the removal of elemental sulfur atoms from cysteine to produce alanine.	0.579
AFE_3141	iscS-3	AFE_3141	AFE_0673	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	Cysteine desulfurase IscS; Master enzyme that delivers sulfur to a number of partners involved in Fe-S cluster assembly, tRNA modification or cofactor biosynthesis. Catalyzes the removal of elemental sulfur atoms from cysteine to produce alanine. Functions as a sulfur delivery protein for Fe-S cluster synthesis onto IscU, an Fe-S scaffold assembly protein, as well as other S acceptor proteins; Belongs to the class-V pyridoxal-phosphate-dependent aminotransferase family. NifS/IscS subfamily.	0.579
AFE_3141	iscU	AFE_3141	AFE_0674	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	FeS cluster assembly scaffold protein IscU; A scaffold on which IscS assembles Fe-S clusters. It is likely that Fe-S cluster coordination is flexible as the role of this complex is to build and then hand off Fe-S clusters.	0.807
AFE_3142	AFE_3139	AFE_3142	AFE_3139	Major facilitator family transporter; Identified by match to protein family HMM PF00083; match to protein family HMM PF07690.	Hypothetical protein; Identified by glimmer; putative.	0.853