APT57932.1 protein (Roseomonas gilardii) - 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

APT57932.1

ATP-dependent DNA ligase; Derived by automated computational analysis using gene prediction method: Protein Homology. (538 aa)

Predicted Functional Partners:

APT57931.1

0.996

APT57736.1

0.978

ligA

0.915

polA

0.909

APT56574.1

0.841

APT59112.1

0.821

APT57118.1

0.739

APT59920.1

0.645

APT57192.1

0.632

APT56056.1

0.627

Your Current Organism:

Roseomonas gilardii

NCBI taxonomy Id: 257708
Other names: ATCC 49956, CCUG 33005, CIP 104026, R. gilardii, strain 5424

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
APT56056.1	APT57118.1	RGI145_01915	RGI145_08440	Exodeoxyribonuclease III; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA replication protein DnaC; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.624
APT56056.1	APT57736.1	RGI145_01915	RGI145_12070	Exodeoxyribonuclease III; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit beta; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	0.788
APT56056.1	APT57932.1	RGI145_01915	RGI145_13215	Exodeoxyribonuclease III; Derived by automated computational analysis using gene prediction method: Protein Homology.	ATP-dependent DNA ligase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.627
APT56056.1	polA	RGI145_01915	RGI145_01305	Exodeoxyribonuclease III; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family.	0.869
APT56574.1	APT57931.1	RGI145_05080	RGI145_13210	Phosphoesterase; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA ligase-associated DEXH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.820
APT56574.1	APT57932.1	RGI145_05080	RGI145_13215	Phosphoesterase; Derived by automated computational analysis using gene prediction method: Protein Homology.	ATP-dependent DNA ligase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.841
APT56574.1	APT59112.1	RGI145_05080	RGI145_05085	Phosphoesterase; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA ligase-associated DEXH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.955
APT57118.1	APT56056.1	RGI145_08440	RGI145_01915	DNA replication protein DnaC; Derived by automated computational analysis using gene prediction method: Protein Homology.	Exodeoxyribonuclease III; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.624
APT57118.1	APT57736.1	RGI145_08440	RGI145_12070	DNA replication protein DnaC; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit beta; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	0.999
APT57118.1	APT57932.1	RGI145_08440	RGI145_13215	DNA replication protein DnaC; Derived by automated computational analysis using gene prediction method: Protein Homology.	ATP-dependent DNA ligase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.739
APT57118.1	APT59920.1	RGI145_08440	RGI145_21720	DNA replication protein DnaC; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.693
APT57118.1	polA	RGI145_08440	RGI145_01305	DNA replication protein DnaC; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family.	0.919
APT57192.1	APT57736.1	RGI145_08870	RGI145_12070	Signal peptidase I; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the peptidase S26 family.	DNA polymerase III subunit beta; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	0.449
APT57192.1	APT57932.1	RGI145_08870	RGI145_13215	Signal peptidase I; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the peptidase S26 family.	ATP-dependent DNA ligase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.632
APT57736.1	APT56056.1	RGI145_12070	RGI145_01915	DNA polymerase III subunit beta; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	Exodeoxyribonuclease III; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.788
APT57736.1	APT57118.1	RGI145_12070	RGI145_08440	DNA polymerase III subunit beta; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	DNA replication protein DnaC; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
APT57736.1	APT57192.1	RGI145_12070	RGI145_08870	DNA polymerase III subunit beta; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	Signal peptidase I; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the peptidase S26 family.	0.449
APT57736.1	APT57932.1	RGI145_12070	RGI145_13215	DNA polymerase III subunit beta; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	ATP-dependent DNA ligase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.978
APT57736.1	APT59920.1	RGI145_12070	RGI145_21720	DNA polymerase III subunit beta; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.554
APT57736.1	ligA	RGI145_12070	RGI145_13390	DNA polymerase III subunit beta; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	DNA ligase (NAD(+)) LigA; DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double- stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA.	0.443