(17 nodes) Ribosomal subunit network (Nocardiopsis alba)

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

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experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

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protein homology

Your Input:
	rpmF-2	Ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family. (56 aa)
	rpsN	30S ribosomal protein S14; Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site; Belongs to the universal ribosomal protein uS14 family. (101 aa)
	raiA	Ribosomal subunit interface protein; Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase; 100S ribosomes are translationally inactive and sometimes present during exponential growth. (224 aa)
	rpsG	Ribosomal protein S7; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit. Is located at the subunit interface close to the decoding center, probably blocks exit of the E-site tRNA; Belongs to the universal ribosomal protein uS7 family. (156 aa)
	rplC	50S 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. (216 aa)
	rplB	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. (279 aa)
	rpmF	Ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family. (58 aa)
	rpsB	Ribosomal protein S2; Belongs to the universal ribosomal protein uS2 family. (310 aa)
	rpsC	Ribosomal protein S3; Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation; Belongs to the universal ribosomal protein uS3 family. (263 aa)
	rpsQ	30S ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (90 aa)
	rplN	Ribosomal protein L14; Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome; Belongs to the universal ribosomal protein uL14 family. (122 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. (180 aa)
	rpsE	Ribosomal protein S5; Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body. Belongs to the universal ribosomal protein uS5 family. (200 aa)
	rpmD	Ribosomal protein L30. (61 aa)
	B005_3888	S1 RNA binding domain protein. (497 aa)
	rplO	Ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (154 aa)
	rpsI	Ribosomal S9/S16 family protein; Belongs to the universal ribosomal protein uS9 family. (169 aa)

Your Current Organism:

Nocardiopsis alba

NCBI taxonomy Id: 1205910
Other names: N. alba ATCC BAA-2165, Nocardiopsis alba ATCC BAA-2165, Nocardiopsis alba BE74

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
B005_3888	raiA	B005_3888	B005_0918	S1 RNA binding domain protein.	Ribosomal subunit interface protein; Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase; 100S ribosomes are translationally inactive and sometimes present during exponential growth.	0.839
B005_3888	rplB	B005_3888	B005_2707	S1 RNA binding domain protein.	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.	0.960
B005_3888	rplC	B005_3888	B005_2704	S1 RNA binding domain protein.	50S 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.	0.960
B005_3888	rplE	B005_3888	B005_2717	S1 RNA binding domain protein.	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.	0.955
B005_3888	rplN	B005_3888	B005_2715	S1 RNA binding domain protein.	Ribosomal protein L14; Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome; Belongs to the universal ribosomal protein uL14 family.	0.943
B005_3888	rplO	B005_3888	B005_2724	S1 RNA binding domain protein.	Ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.948
B005_3888	rpmD	B005_3888	B005_2723	S1 RNA binding domain protein.	Ribosomal protein L30.	0.928
B005_3888	rpmF	B005_3888	B005_3053	S1 RNA binding domain protein.	Ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family.	0.768
B005_3888	rpmF-2	B005_3888	B005_4286	S1 RNA binding domain protein.	Ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family.	0.768
B005_3888	rpsB	B005_3888	B005_3102	S1 RNA binding domain protein.	Ribosomal protein S2; Belongs to the universal ribosomal protein uS2 family.	0.979
B005_3888	rpsC	B005_3888	B005_2711	S1 RNA binding domain protein.	Ribosomal protein S3; Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation; Belongs to the universal ribosomal protein uS3 family.	0.934
B005_3888	rpsE	B005_3888	B005_2722	S1 RNA binding domain protein.	Ribosomal protein S5; Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body. Belongs to the universal ribosomal protein uS5 family.	0.992
B005_3888	rpsG	B005_3888	B005_2700	S1 RNA binding domain protein.	Ribosomal protein S7; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit. Is located at the subunit interface close to the decoding center, probably blocks exit of the E-site tRNA; Belongs to the universal ribosomal protein uS7 family.	0.984
B005_3888	rpsI	B005_3888	B005_2739	S1 RNA binding domain protein.	Ribosomal S9/S16 family protein; Belongs to the universal ribosomal protein uS9 family.	0.944
B005_3888	rpsN	B005_3888	B005_0591	S1 RNA binding domain protein.	30S ribosomal protein S14; Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site; Belongs to the universal ribosomal protein uS14 family.	0.837
B005_3888	rpsQ	B005_3888	B005_2714	S1 RNA binding domain protein.	30S ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.	0.983
raiA	B005_3888	B005_0918	B005_3888	Ribosomal subunit interface protein; Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase; 100S ribosomes are translationally inactive and sometimes present during exponential growth.	S1 RNA binding domain protein.	0.839
raiA	rplB	B005_0918	B005_2707	Ribosomal subunit interface protein; Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase; 100S ribosomes are translationally inactive and sometimes present during exponential growth.	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.	0.912
raiA	rplC	B005_0918	B005_2704	Ribosomal subunit interface protein; Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase; 100S ribosomes are translationally inactive and sometimes present during exponential growth.	50S 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.	0.914
raiA	rplE	B005_0918	B005_2717	Ribosomal subunit interface protein; Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase; 100S ribosomes are translationally inactive and sometimes present during exponential growth.	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.	0.915