ligA protein (Agrobacterium rhizogenes) - 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:
some 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 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

Cooccurence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

ligA

DNA ligase; 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 (717 aa)

Predicted Functional Partners:

polA

0.999

CN09_16300

0.999

CN09_17085

0.999

CN09_10375

0.999

CN09_06305

0.979

uvrA

0.970

uvrB

0.969

CN09_15290

0.968

CN09_05095

0.954

recG

0.940

Your Current Organism:

Agrobacterium rhizogenes

NCBI taxonomy Id: 359
Other names: A. rhizogenes, ATCC 11325, Agrobacterium biovar 2, Agrobacterium genomic group 10, Agrobacterium genomic species 10, Agrobacterium genomosp. 10, Agrobacterium rhizogenes, Agrobacterium rhizogenes (RI plasmid PRI1724), Agrobacterium rhizogenes (RI plasmid PRI8196), Agrobacterium rhizogenes (RI plasmid PRIA4B), CFBP 5520, CIP 104328, DSM 30148, ICMP 5794, IFO 13257, JCM 20919, LMG 150, NBRC 13257, NCPPB 2991, Rhizobium rhizogenes, Rhizobium sp. LMG 9509

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 resolution at 400 dpi

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as simple tabular text output:

download

TSV: tab separated values - can be opened in Excel

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... 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 annotated functions of the network proteins

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
CN09_05095	CN09_06305	CN09_05095	CN09_06305	DNA repair protein RecN; May be involved in recombinational repair of damaged DNA	Glutamine-dependent NAD(+) synthetase; Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	0.827
CN09_05095	CN09_15290	CN09_05095	CN09_15290	DNA repair protein RecN; May be involved in recombinational repair of damaged DNA	Hemagglutinin; Derived by automated computational analysis using gene prediction method- Protein Homology	0.870
CN09_05095	CN09_17085	CN09_05095	CN09_17085	DNA repair protein RecN; May be involved in recombinational repair of damaged DNA	Pyruvate, phosphate dikinase; Catalyzes the formation of phosphoenolpyruvate from pyruvate; Derived by automated computational analysis using gene prediction method- Protein Homology; Belongs to the PEP-utilizing enzyme family	0.999
CN09_05095	ligA	CN09_05095	CN09_05100	DNA repair protein RecN; May be involved in recombinational repair of damaged DNA	DNA ligase; 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	0.954
CN09_05095	polA	CN09_05095	CN09_13050	DNA repair protein RecN; May be involved in recombinational repair of damaged DNA	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5’-3’ exonuclease activity	0.963
CN09_05095	recG	CN09_05095	CN09_07550	DNA repair protein RecN; May be involved in recombinational repair of damaged DNA	ATP-dependent DNA helicase RecG; Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3’- to 5’- polarity. Unwinds branched duplex DNA (Y-DNA)	0.908
CN09_05095	uvrA	CN09_05095	CN09_07475	DNA repair protein RecN; May be involved in recombinational repair of damaged DNA	UvrABC system protein A; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by UvrB, the UvrA molecules dissociate	0.956
CN09_05095	uvrB	CN09_05095	CN09_05980	DNA repair protein RecN; May be involved in recombinational repair of damaged DNA	UvrABC system protein B; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. Upon binding of the UvrA(2)B(2) complex to a putative damaged site, the DNA wraps around one UvrB monomer. DNA wrap is dependent on ATP binding by UvrB and probably causes local melting of the DNA helix, facilitating insertion of UvrB beta-hairpin between the DNA strands. Then UvrB probes one DNA strand for the presence of a lesion. If a lesion is found the UvrA subunits dissociate and [...]	0.868
CN09_06305	CN09_05095	CN09_06305	CN09_05095	Glutamine-dependent NAD(+) synthetase; Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	DNA repair protein RecN; May be involved in recombinational repair of damaged DNA	0.827
CN09_06305	CN09_10375	CN09_06305	CN09_10375	Glutamine-dependent NAD(+) synthetase; Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	Riboflavin biosynthesis protein RibD; Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5’-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5’-phosphate; In the C-terminal section; belongs to the HTP reductase family	0.999
CN09_06305	CN09_15290	CN09_06305	CN09_15290	Glutamine-dependent NAD(+) synthetase; Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	Hemagglutinin; Derived by automated computational analysis using gene prediction method- Protein Homology	0.841
CN09_06305	CN09_16300	CN09_06305	CN09_16300	Glutamine-dependent NAD(+) synthetase; Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	Potassium transporter TrkA; Derived by automated computational analysis using gene prediction method- Protein Homology; Belongs to the monovalent cation-proton antiporter 2 (CPA2) transporter (TC 2.A.37) family	0.999
CN09_06305	CN09_17085	CN09_06305	CN09_17085	Glutamine-dependent NAD(+) synthetase; Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	Pyruvate, phosphate dikinase; Catalyzes the formation of phosphoenolpyruvate from pyruvate; Derived by automated computational analysis using gene prediction method- Protein Homology; Belongs to the PEP-utilizing enzyme family	0.560
CN09_06305	ligA	CN09_06305	CN09_05100	Glutamine-dependent NAD(+) synthetase; Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	DNA ligase; 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	0.979
CN09_06305	polA	CN09_06305	CN09_13050	Glutamine-dependent NAD(+) synthetase; Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5’-3’ exonuclease activity	0.726
CN09_06305	recG	CN09_06305	CN09_07550	Glutamine-dependent NAD(+) synthetase; Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	ATP-dependent DNA helicase RecG; Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3’- to 5’- polarity. Unwinds branched duplex DNA (Y-DNA)	0.795
CN09_06305	uvrB	CN09_06305	CN09_05980	Glutamine-dependent NAD(+) synthetase; Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	UvrABC system protein B; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. Upon binding of the UvrA(2)B(2) complex to a putative damaged site, the DNA wraps around one UvrB monomer. DNA wrap is dependent on ATP binding by UvrB and probably causes local melting of the DNA helix, facilitating insertion of UvrB beta-hairpin between the DNA strands. Then UvrB probes one DNA strand for the presence of a lesion. If a lesion is found the UvrA subunits dissociate and [...]	0.840
CN09_10375	CN09_06305	CN09_10375	CN09_06305	Riboflavin biosynthesis protein RibD; Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5’-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5’-phosphate; In the C-terminal section; belongs to the HTP reductase family	Glutamine-dependent NAD(+) synthetase; Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	0.999
CN09_10375	CN09_15290	CN09_10375	CN09_15290	Riboflavin biosynthesis protein RibD; Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5’-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5’-phosphate; In the C-terminal section; belongs to the HTP reductase family	Hemagglutinin; Derived by automated computational analysis using gene prediction method- Protein Homology	0.999
CN09_10375	CN09_16300	CN09_10375	CN09_16300	Riboflavin biosynthesis protein RibD; Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5’-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5’-phosphate; In the C-terminal section; belongs to the HTP reductase family	Potassium transporter TrkA; Derived by automated computational analysis using gene prediction method- Protein Homology; Belongs to the monovalent cation-proton antiporter 2 (CPA2) transporter (TC 2.A.37) family	0.538

page 1 of 5

Network

Neighborhood

Experiments

Cooccurrence

Textmining

Coexpression

Databases

Fusion

© STRING Consortium 2020

Credits

Access

Info

About