(17 nodes) Cytosolic large ribosomal subunit network (Helicobacter muridarum)

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:
	rplC	50S ribosomal protein L3; Derived by automated computational analysis using gene prediction method: Protein Homology. (196 aa)
	KGL12699.1	50S ribosomal protein L4; Derived by automated computational analysis using gene prediction method: Protein Homology. (204 aa)
	KGL12697.1	50S ribosomal protein L2; Derived by automated computational analysis using gene prediction method: Protein Homology. (275 aa)
	KGL12695.1	50S ribosomal protein L22; Derived by automated computational analysis using gene prediction method: Protein Homology. (118 aa)
	KGL12688.1	50S ribosomal protein L5; Derived by automated computational analysis using gene prediction method: Protein Homology. (181 aa)
	KGL12685.1	50S ribosomal protein L6; Derived by automated computational analysis using gene prediction method: Protein Homology. (178 aa)
	KGL12684.1	50S ribosomal protein L18; Derived by automated computational analysis using gene prediction method: Protein Homology. (118 aa)
	KGL12682.1	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology. (137 aa)
	rplY	50S ribosomal protein L25; This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. Belongs to the bacterial ribosomal protein bL25 family. CTC subfamily. (178 aa)
	rpmE	50S ribosomal protein L31; Binds the 23S rRNA; Belongs to the bacterial ribosomal protein bL31 family. Type A subfamily. (67 aa)
	rplO	50S ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (137 aa)
	rplR	50S ribosomal protein L18; This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. (118 aa)
	rplF	50S ribosomal protein L6; This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center; Belongs to the universal ribosomal protein uL6 family. (178 aa)
	rplE	50S ribosomal protein L5; This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. (181 aa)
	rplV	50S ribosomal protein L22; The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. (118 aa)
	rplB	50S ribosomal protein L2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family. (275 aa)
	rplD	50S ribosomal protein L4; Forms part of the polypeptide exit tunnel. (204 aa)

Your Current Organism:

Helicobacter muridarum

NCBI taxonomy Id: 216
Other names: ATCC 49282, CCUG 29262, CIP 104248, DSM 22221, H. muridarum, LMG 13646, LMG:13646, NCTC 12714, strain ST1

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
KGL12682.1	KGL12684.1	LS73_07960	LS73_07970	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L18; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.998
KGL12682.1	KGL12685.1	LS73_07960	LS73_07975	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L6; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.997
KGL12682.1	KGL12688.1	LS73_07960	LS73_07990	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L5; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.994
KGL12682.1	KGL12695.1	LS73_07960	LS73_08025	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L22; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.997
KGL12682.1	KGL12697.1	LS73_07960	LS73_08035	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L2; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.991
KGL12682.1	KGL12699.1	LS73_07960	LS73_08045	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L4; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.988
KGL12682.1	rplB	LS73_07960	LS73_02670	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family.	0.987
KGL12682.1	rplC	LS73_07960	LS73_02655	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L3; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
KGL12682.1	rplD	LS73_07960	LS73_02660	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L4; Forms part of the polypeptide exit tunnel.	0.983
KGL12682.1	rplE	LS73_07960	LS73_02710	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L5; This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs.	0.989
KGL12682.1	rplF	LS73_07960	LS73_02725	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L6; This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center; Belongs to the universal ribosomal protein uL6 family.	0.993
KGL12682.1	rplR	LS73_07960	LS73_02730	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L18; This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.	0.995
KGL12682.1	rplV	LS73_07960	LS73_02680	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L22; The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome.	0.995
KGL12682.1	rplY	LS73_07960	LS73_04550	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L25; This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. Belongs to the bacterial ribosomal protein bL25 family. CTC subfamily.	0.972
KGL12682.1	rpmE	LS73_07960	LS73_04500	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L31; Binds the 23S rRNA; Belongs to the bacterial ribosomal protein bL31 family. Type A subfamily.	0.915
KGL12684.1	KGL12682.1	LS73_07970	LS73_07960	50S ribosomal protein L18; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L15; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.998
KGL12684.1	KGL12685.1	LS73_07970	LS73_07975	50S ribosomal protein L18; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L6; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
KGL12684.1	KGL12688.1	LS73_07970	LS73_07990	50S ribosomal protein L18; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L5; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.996
KGL12684.1	KGL12695.1	LS73_07970	LS73_08025	50S ribosomal protein L18; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L22; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.998
KGL12684.1	KGL12697.1	LS73_07970	LS73_08035	50S ribosomal protein L18; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L2; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.991