(5 nodes) Large ribosomal subunit, and KOW (Kyprides, Ouzounis, Woese) motif. network (Shewanella algae)

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:
	rplX	Unannotated protein; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. (104 aa)
	rplF	Unannotated protein; 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. (177 aa)
	rplR	Unannotated protein; 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. (116 aa)
	rpmD	Unannotated protein. (60 aa)
	rplO	Unannotated protein; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (147 aa)

Your Current Organism:

Shewanella algae

NCBI taxonomy Id: 38313
Other names: ATCC 51192, CCUG 39064, CCUG 58400 [[Shewanella upenei]], CIP 106454, DSM 9167, IAM 14159, JCM 14758 [[Shewanella haliotis]], JCM 21037, KCTC 12896 [[Shewanella haliotis]], KCTC 22806 [[Shewanella upenei]], NBRC 103173, S. algae, Shewanella alga, Shewanella haliotis, Shewanella haliotis Kim et al. 2007, Shewanella sp. 20-23R, Shewanella sp. CNZ-1, Shewanella upenei, Shewanella upenei Kim et al. 2012, strain 20-23R [[Shewanella upenei]], strain DW01 [[Shewanella haliotis]], strain OK-1

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

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node degree of proteins in your network (given the current score cut-off)

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a flat-file format describing the coordinates and colors of nodes in the network

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... protein annotations:

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

... functional annotations:

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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
rplF	rplO	GCA_000947195_00046	GCA_000947195_00050	Unannotated protein; 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.	Unannotated protein; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.998
rplF	rplR	GCA_000947195_00046	GCA_000947195_00047	Unannotated protein; 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.	Unannotated protein; 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
rplF	rplX	GCA_000947195_00046	GCA_000947195_00042	Unannotated protein; 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.	Unannotated protein; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	0.998
rplF	rpmD	GCA_000947195_00046	GCA_000947195_00049	Unannotated protein; 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.	Unannotated protein.	0.999
rplO	rplF	GCA_000947195_00050	GCA_000947195_00046	Unannotated protein; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	Unannotated protein; 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.	0.998
rplO	rplR	GCA_000947195_00050	GCA_000947195_00047	Unannotated protein; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	Unannotated protein; 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
rplO	rplX	GCA_000947195_00050	GCA_000947195_00042	Unannotated protein; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	Unannotated protein; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	0.996
rplO	rpmD	GCA_000947195_00050	GCA_000947195_00049	Unannotated protein; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	Unannotated protein.	0.999
rplR	rplF	GCA_000947195_00047	GCA_000947195_00046	Unannotated protein; 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.	Unannotated protein; 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
rplR	rplO	GCA_000947195_00047	GCA_000947195_00050	Unannotated protein; 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.	Unannotated protein; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.999
rplR	rplX	GCA_000947195_00047	GCA_000947195_00042	Unannotated protein; 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.	Unannotated protein; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	0.998
rplR	rpmD	GCA_000947195_00047	GCA_000947195_00049	Unannotated protein; 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.	Unannotated protein.	0.999
rplX	rplF	GCA_000947195_00042	GCA_000947195_00046	Unannotated protein; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	Unannotated protein; 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.	0.998
rplX	rplO	GCA_000947195_00042	GCA_000947195_00050	Unannotated protein; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	Unannotated protein; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.996
rplX	rplR	GCA_000947195_00042	GCA_000947195_00047	Unannotated protein; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	Unannotated protein; 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.	0.998
rplX	rpmD	GCA_000947195_00042	GCA_000947195_00049	Unannotated protein; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	Unannotated protein.	0.998
rpmD	rplF	GCA_000947195_00049	GCA_000947195_00046	Unannotated protein.	Unannotated protein; 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
rpmD	rplO	GCA_000947195_00049	GCA_000947195_00050	Unannotated protein.	Unannotated protein; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.999
rpmD	rplR	GCA_000947195_00049	GCA_000947195_00047	Unannotated protein.	Unannotated protein; 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
rpmD	rplX	GCA_000947195_00049	GCA_000947195_00042	Unannotated protein.	Unannotated protein; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	0.998

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