SDK59038.1 protein (Sarcina sp. DSM 11001) - 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.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

SDK59038.1

DNA-binding transcriptional regulator YhcF, GntR family. (122 aa)

Predicted Functional Partners:

SDK59001.1

0.723

SDK40236.1

0.646

radA

0.516

SDK59072.1

0.450

SDK40197.1

0.430

SDL68381.1

0.424

Your Current Organism:

Sarcina sp. DSM 11001

NCBI taxonomy Id: 1798184
Other names: S. sp. DSM 11001

Send network to Cytoscape

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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SDK40197.1	SDK40236.1	SAMN04487833_102141	SAMN04487833_102142	ABC-2 type transport system ATP-binding protein.	Hypothetical protein.	0.962
SDK40197.1	SDK59038.1	SAMN04487833_102141	SAMN04487833_104122	ABC-2 type transport system ATP-binding protein.	DNA-binding transcriptional regulator YhcF, GntR family.	0.430
SDK40236.1	SDK40197.1	SAMN04487833_102142	SAMN04487833_102141	Hypothetical protein.	ABC-2 type transport system ATP-binding protein.	0.962
SDK40236.1	SDK59038.1	SAMN04487833_102142	SAMN04487833_104122	Hypothetical protein.	DNA-binding transcriptional regulator YhcF, GntR family.	0.646
SDK59001.1	SDK59038.1	SAMN04487833_104121	SAMN04487833_104122	ATP-dependent Clp protease ATP-binding subunit ClpC; Belongs to the ClpA/ClpB family.	DNA-binding transcriptional regulator YhcF, GntR family.	0.723
SDK59001.1	SDK59072.1	SAMN04487833_104121	SAMN04487833_104123	ATP-dependent Clp protease ATP-binding subunit ClpC; Belongs to the ClpA/ClpB family.	SH3 domain-containing protein.	0.578
SDK59001.1	radA	SAMN04487833_104121	SAMN04487833_104120	ATP-dependent Clp protease ATP-binding subunit ClpC; Belongs to the ClpA/ClpB family.	DNA repair protein RadA/Sms; DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function.	0.661
SDK59038.1	SDK40197.1	SAMN04487833_104122	SAMN04487833_102141	DNA-binding transcriptional regulator YhcF, GntR family.	ABC-2 type transport system ATP-binding protein.	0.430
SDK59038.1	SDK40236.1	SAMN04487833_104122	SAMN04487833_102142	DNA-binding transcriptional regulator YhcF, GntR family.	Hypothetical protein.	0.646
SDK59038.1	SDK59001.1	SAMN04487833_104122	SAMN04487833_104121	DNA-binding transcriptional regulator YhcF, GntR family.	ATP-dependent Clp protease ATP-binding subunit ClpC; Belongs to the ClpA/ClpB family.	0.723
SDK59038.1	SDK59072.1	SAMN04487833_104122	SAMN04487833_104123	DNA-binding transcriptional regulator YhcF, GntR family.	SH3 domain-containing protein.	0.450
SDK59038.1	SDL68381.1	SAMN04487833_104122	SAMN04487833_12712	DNA-binding transcriptional regulator YhcF, GntR family.	Hypothetical protein.	0.424
SDK59038.1	radA	SAMN04487833_104122	SAMN04487833_104120	DNA-binding transcriptional regulator YhcF, GntR family.	DNA repair protein RadA/Sms; DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function.	0.516
SDK59072.1	SDK59001.1	SAMN04487833_104123	SAMN04487833_104121	SH3 domain-containing protein.	ATP-dependent Clp protease ATP-binding subunit ClpC; Belongs to the ClpA/ClpB family.	0.578
SDK59072.1	SDK59038.1	SAMN04487833_104123	SAMN04487833_104122	SH3 domain-containing protein.	DNA-binding transcriptional regulator YhcF, GntR family.	0.450
SDL68381.1	SDK59038.1	SAMN04487833_12712	SAMN04487833_104122	Hypothetical protein.	DNA-binding transcriptional regulator YhcF, GntR family.	0.424
radA	SDK59001.1	SAMN04487833_104120	SAMN04487833_104121	DNA repair protein RadA/Sms; DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function.	ATP-dependent Clp protease ATP-binding subunit ClpC; Belongs to the ClpA/ClpB family.	0.661
radA	SDK59038.1	SAMN04487833_104120	SAMN04487833_104122	DNA repair protein RadA/Sms; DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function.	DNA-binding transcriptional regulator YhcF, GntR family.	0.516