tcdA protein (Clostridium thermoalcaliphilum)

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

tcdA

tRNA threonylcarbamoyladenosine dehydratase. (249 aa)

Predicted Functional Partners:

nadE_2

0.722

thiG

0.557

moeB

0.501

OPJ55190.1

0.483

OPJ54765.1

0.483

hemN_3

0.458

OPJ55230.1

0.427

puuB

0.422

hisS

0.415

trpB

0.411

Your Current Organism:

Clostridium thermoalcaliphilum

NCBI taxonomy Id: 29349
Other names: ATCC 51508, CIP 105528, DSM 7309, [. thermoalcaliphilum, [Clostridium] thermoalcaliphilum, strain JW/YL23-2

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
OPJ54765.1	OPJ55190.1	CLOTH_19860	CLOTH_16900	Thiamine biosynthesis protein ThiF.	Sulfur carrier protein ThiS.	0.874
OPJ54765.1	puuB	CLOTH_19860	CLOTH_08830	Thiamine biosynthesis protein ThiF.	Gamma-glutamylputrescine oxidoreductase.	0.442
OPJ54765.1	tcdA	CLOTH_19860	CLOTH_15320	Thiamine biosynthesis protein ThiF.	tRNA threonylcarbamoyladenosine dehydratase.	0.483
OPJ54765.1	thiG	CLOTH_19860	CLOTH_16880	Thiamine biosynthesis protein ThiF.	Thiazole synthase; Catalyzes the rearrangement of 1-deoxy-D-xylulose 5-phosphate (DXP) to produce the thiazole phosphate moiety of thiamine. Sulfur is provided by the thiocarboxylate moiety of the carrier protein ThiS. In vitro, sulfur can be provided by H(2)S.	0.786
OPJ55190.1	OPJ54765.1	CLOTH_16900	CLOTH_19860	Sulfur carrier protein ThiS.	Thiamine biosynthesis protein ThiF.	0.874
OPJ55190.1	moeB	CLOTH_16900	CLOTH_16890	Sulfur carrier protein ThiS.	Molybdopterin-synthase adenylyltransferase.	0.991
OPJ55190.1	puuB	CLOTH_16900	CLOTH_08830	Sulfur carrier protein ThiS.	Gamma-glutamylputrescine oxidoreductase.	0.741
OPJ55190.1	tcdA	CLOTH_16900	CLOTH_15320	Sulfur carrier protein ThiS.	tRNA threonylcarbamoyladenosine dehydratase.	0.483
OPJ55190.1	thiG	CLOTH_16900	CLOTH_16880	Sulfur carrier protein ThiS.	Thiazole synthase; Catalyzes the rearrangement of 1-deoxy-D-xylulose 5-phosphate (DXP) to produce the thiazole phosphate moiety of thiamine. Sulfur is provided by the thiocarboxylate moiety of the carrier protein ThiS. In vitro, sulfur can be provided by H(2)S.	0.998
OPJ55230.1	tcdA	CLOTH_15330	CLOTH_15320	DNA-binding transcriptional regulator DhaR.	tRNA threonylcarbamoyladenosine dehydratase.	0.427
hemN_3	tcdA	CLOTH_13860	CLOTH_15320	Oxygen-independent coproporphyrinogen-III oxidase-like protein.	tRNA threonylcarbamoyladenosine dehydratase.	0.458
hisS	tcdA	CLOTH_00590	CLOTH_15320	histidine--tRNA ligase.	tRNA threonylcarbamoyladenosine dehydratase.	0.415
moeB	OPJ55190.1	CLOTH_16890	CLOTH_16900	Molybdopterin-synthase adenylyltransferase.	Sulfur carrier protein ThiS.	0.991
moeB	puuB	CLOTH_16890	CLOTH_08830	Molybdopterin-synthase adenylyltransferase.	Gamma-glutamylputrescine oxidoreductase.	0.442
moeB	tcdA	CLOTH_16890	CLOTH_15320	Molybdopterin-synthase adenylyltransferase.	tRNA threonylcarbamoyladenosine dehydratase.	0.501
moeB	thiG	CLOTH_16890	CLOTH_16880	Molybdopterin-synthase adenylyltransferase.	Thiazole synthase; Catalyzes the rearrangement of 1-deoxy-D-xylulose 5-phosphate (DXP) to produce the thiazole phosphate moiety of thiamine. Sulfur is provided by the thiocarboxylate moiety of the carrier protein ThiS. In vitro, sulfur can be provided by H(2)S.	0.987
nadE_2	tcdA	CLOTH_15310	CLOTH_15320	NH(3)-dependent NAD(+) synthetase.	tRNA threonylcarbamoyladenosine dehydratase.	0.722
puuB	OPJ54765.1	CLOTH_08830	CLOTH_19860	Gamma-glutamylputrescine oxidoreductase.	Thiamine biosynthesis protein ThiF.	0.442
puuB	OPJ55190.1	CLOTH_08830	CLOTH_16900	Gamma-glutamylputrescine oxidoreductase.	Sulfur carrier protein ThiS.	0.741
puuB	moeB	CLOTH_08830	CLOTH_16890	Gamma-glutamylputrescine oxidoreductase.	Molybdopterin-synthase adenylyltransferase.	0.442