(12 nodes) Mixed, incl. Large ribosomal subunit, and Translation protein SH3-like domain superfamily network (Megasphaera paucivorans)

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:
	SDM90513.1	Hypothetical protein. (96 aa)
	rplO	LSU ribosomal protein L15P; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (146 aa)
	rpmD	Large subunit ribosomal protein L30. (59 aa)
	rplR	Large subunit 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. (120 aa)
	rplF	Large subunit 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. (180 aa)
	rplX	Large subunit ribosomal protein L24; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. (105 aa)
	rpmC	Large subunit ribosomal protein L29; Belongs to the universal ribosomal protein uL29 family. (66 aa)
	rplV	Large subunit 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. (111 aa)
	rplW	LSU ribosomal protein L23P; One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome; Belongs to the universal ribosomal protein uL23 family. (94 aa)
	rplD	Large subunit ribosomal protein L4; Forms part of the polypeptide exit tunnel. (207 aa)
	rplC	Large subunit ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family. (212 aa)
	rplJ	LSU ribosomal protein L10P; Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors. Belongs to the universal ribosomal protein uL10 family. (185 aa)

Your Current Organism:

Megasphaera paucivorans

NCBI taxonomy Id: 349095
Other names: DSM 16981, M. paucivorans, Megasphaera paucivorans Juvonen and Suihko 2006, VTT E-032341

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a tab-delimited file describing the names, domains and descriptions of proteins in your network

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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
SDM90513.1	rplC	SAMN05660299_01739	SAMN05660299_01762	Hypothetical protein.	Large subunit ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	0.998
SDM90513.1	rplD	SAMN05660299_01739	SAMN05660299_01761	Hypothetical protein.	Large subunit ribosomal protein L4; Forms part of the polypeptide exit tunnel.	0.997
SDM90513.1	rplF	SAMN05660299_01739	SAMN05660299_01747	Hypothetical protein.	Large subunit 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.	0.999
SDM90513.1	rplJ	SAMN05660299_01739	SAMN05660299_02667	Hypothetical protein.	LSU ribosomal protein L10P; Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors. Belongs to the universal ribosomal protein uL10 family.	0.999
SDM90513.1	rplO	SAMN05660299_01739	SAMN05660299_01743	Hypothetical protein.	LSU ribosomal protein L15P; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.999
SDM90513.1	rplR	SAMN05660299_01739	SAMN05660299_01746	Hypothetical protein.	Large subunit 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.	0.999
SDM90513.1	rplV	SAMN05660299_01739	SAMN05660299_01757	Hypothetical protein.	Large subunit 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.	0.999
SDM90513.1	rplW	SAMN05660299_01739	SAMN05660299_01760	Hypothetical protein.	LSU ribosomal protein L23P; One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome; Belongs to the universal ribosomal protein uL23 family.	0.999
SDM90513.1	rplX	SAMN05660299_01739	SAMN05660299_01751	Hypothetical protein.	Large subunit ribosomal protein L24; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	0.999
SDM90513.1	rpmC	SAMN05660299_01739	SAMN05660299_01754	Hypothetical protein.	Large subunit ribosomal protein L29; Belongs to the universal ribosomal protein uL29 family.	0.999
SDM90513.1	rpmD	SAMN05660299_01739	SAMN05660299_01744	Hypothetical protein.	Large subunit ribosomal protein L30.	0.999
rplC	SDM90513.1	SAMN05660299_01762	SAMN05660299_01739	Large subunit ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	Hypothetical protein.	0.998
rplC	rplD	SAMN05660299_01762	SAMN05660299_01761	Large subunit ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	Large subunit ribosomal protein L4; Forms part of the polypeptide exit tunnel.	0.999
rplC	rplF	SAMN05660299_01762	SAMN05660299_01747	Large subunit ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	Large subunit 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.	0.999
rplC	rplJ	SAMN05660299_01762	SAMN05660299_02667	Large subunit ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	LSU ribosomal protein L10P; Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors. Belongs to the universal ribosomal protein uL10 family.	0.999
rplC	rplO	SAMN05660299_01762	SAMN05660299_01743	Large subunit ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	LSU ribosomal protein L15P; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.999
rplC	rplR	SAMN05660299_01762	SAMN05660299_01746	Large subunit ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	Large subunit 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.	0.999
rplC	rplV	SAMN05660299_01762	SAMN05660299_01757	Large subunit ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	Large subunit 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.	0.999
rplC	rplW	SAMN05660299_01762	SAMN05660299_01760	Large subunit ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	LSU ribosomal protein L23P; One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome; Belongs to the universal ribosomal protein uL23 family.	0.999
rplC	rplX	SAMN05660299_01762	SAMN05660299_01751	Large subunit ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	Large subunit ribosomal protein L24; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	0.999