ykoD protein (Ruminiclostridium hungatei) - STRING interaction network

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

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

ykoD

Putative HMP/thiamine import ATP-binding protein YkoD. (570 aa)

Predicted Functional Partners:

ecfT_3

0.995

OPX42882.1

0.966

cbiQ

0.884

oppA

0.858

ecfT_4

0.820

ecfT_1

0.818

ecfT_2

0.812

ybhS

0.797

oppB

0.777

gsiC

0.777

Your Current Organism:

Ruminiclostridium hungatei

NCBI taxonomy Id: 48256
Other names: ATCC 700212, Clostridium hungatei, Clostridium hungatei Monserrate et al. 2001, DSM 14427, R. hungatei, strain AD

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
OPX42882.1	cbiQ	CLHUN_32060	CLHUN_03700	Hypothetical protein.	Cobalt transport protein CbiQ.	0.523
OPX42882.1	ecfT_1	CLHUN_32060	CLHUN_16410	Hypothetical protein.	Energy-coupling factor transporter transmembrane protein EcfT.	0.523
OPX42882.1	ecfT_2	CLHUN_32060	CLHUN_31230	Hypothetical protein.	Energy-coupling factor transporter transmembrane protein EcfT; Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates.	0.611
OPX42882.1	ecfT_3	CLHUN_32060	CLHUN_32040	Hypothetical protein.	Energy-coupling factor transporter transmembrane protein EcfT.	0.967
OPX42882.1	ecfT_4	CLHUN_32060	CLHUN_35010	Hypothetical protein.	Energy-coupling factor transporter transmembrane protein EcfT.	0.611
OPX42882.1	ykoD	CLHUN_32060	CLHUN_32050	Hypothetical protein.	Putative HMP/thiamine import ATP-binding protein YkoD.	0.966
cbiQ	OPX42882.1	CLHUN_03700	CLHUN_32060	Cobalt transport protein CbiQ.	Hypothetical protein.	0.523
cbiQ	ecfT_1	CLHUN_03700	CLHUN_16410	Cobalt transport protein CbiQ.	Energy-coupling factor transporter transmembrane protein EcfT.	0.844
cbiQ	ykoD	CLHUN_03700	CLHUN_32050	Cobalt transport protein CbiQ.	Putative HMP/thiamine import ATP-binding protein YkoD.	0.884
ecfT_1	OPX42882.1	CLHUN_16410	CLHUN_32060	Energy-coupling factor transporter transmembrane protein EcfT.	Hypothetical protein.	0.523
ecfT_1	cbiQ	CLHUN_16410	CLHUN_03700	Energy-coupling factor transporter transmembrane protein EcfT.	Cobalt transport protein CbiQ.	0.844
ecfT_1	ykoD	CLHUN_16410	CLHUN_32050	Energy-coupling factor transporter transmembrane protein EcfT.	Putative HMP/thiamine import ATP-binding protein YkoD.	0.818
ecfT_2	OPX42882.1	CLHUN_31230	CLHUN_32060	Energy-coupling factor transporter transmembrane protein EcfT; Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates.	Hypothetical protein.	0.611
ecfT_2	ecfT_3	CLHUN_31230	CLHUN_32040	Energy-coupling factor transporter transmembrane protein EcfT; Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates.	Energy-coupling factor transporter transmembrane protein EcfT.	0.612
ecfT_2	ecfT_4	CLHUN_31230	CLHUN_35010	Energy-coupling factor transporter transmembrane protein EcfT; Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates.	Energy-coupling factor transporter transmembrane protein EcfT.	0.685
ecfT_2	ykoD	CLHUN_31230	CLHUN_32050	Energy-coupling factor transporter transmembrane protein EcfT; Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates.	Putative HMP/thiamine import ATP-binding protein YkoD.	0.812
ecfT_3	OPX42882.1	CLHUN_32040	CLHUN_32060	Energy-coupling factor transporter transmembrane protein EcfT.	Hypothetical protein.	0.967
ecfT_3	ecfT_2	CLHUN_32040	CLHUN_31230	Energy-coupling factor transporter transmembrane protein EcfT.	Energy-coupling factor transporter transmembrane protein EcfT; Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates.	0.612
ecfT_3	ykoD	CLHUN_32040	CLHUN_32050	Energy-coupling factor transporter transmembrane protein EcfT.	Putative HMP/thiamine import ATP-binding protein YkoD.	0.995
ecfT_4	OPX42882.1	CLHUN_35010	CLHUN_32060	Energy-coupling factor transporter transmembrane protein EcfT.	Hypothetical protein.	0.611