(7 nodes) Mixed, incl. L28p-like, and Zinc-binding ribosomal protein network (Lactobacillus johnsonii)

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:
	rpsU	30S ribosomal protein S21; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bS21 family. (58 aa)
	rpmF	50S ribosomal protein L32; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL32 family. (63 aa)
	rpsT	30S ribosomal protein S20; Binds directly to 16S ribosomal RNA. (85 aa)
	rpmI	50S ribosomal protein L35; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL35 family. (66 aa)
	rpmH	50S ribosomal protein L34; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL34 family. (46 aa)
	rpmE2	50S ribosomal protein L31; Derived by automated computational analysis using gene prediction method: Protein Homology. (83 aa)
	rpmB	50S ribosomal protein L28; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL28 family. (61 aa)

Your Current Organism:

Lactobacillus johnsonii

NCBI taxonomy Id: 33959
Other names: ATCC 33200, CCUG 30725, CIP 103620, DSM 10533, JCM 2012, L. johnsonii, VPI 7960

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

... protein node degrees:

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

... network coordinates:

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

... protein sequences:

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MFA: multi-fasta format - containing the aminoacid sequences in the network

... 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
rpmB	rpmE2	BBP16_09870	BBP16_07650	50S ribosomal protein L28; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL28 family.	50S ribosomal protein L31; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.980
rpmB	rpmF	BBP16_09870	BBP16_02240	50S ribosomal protein L28; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL28 family.	50S ribosomal protein L32; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL32 family.	0.982
rpmB	rpmH	BBP16_09870	BBP16_06160	50S ribosomal protein L28; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL28 family.	50S ribosomal protein L34; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL34 family.	0.977
rpmB	rpmI	BBP16_09870	BBP16_03725	50S ribosomal protein L28; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL28 family.	50S ribosomal protein L35; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL35 family.	0.980
rpmB	rpsT	BBP16_09870	BBP16_02550	50S ribosomal protein L28; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL28 family.	30S ribosomal protein S20; Binds directly to 16S ribosomal RNA.	0.981
rpmB	rpsU	BBP16_09870	BBP16_00895	50S ribosomal protein L28; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL28 family.	30S ribosomal protein S21; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bS21 family.	0.979
rpmE2	rpmB	BBP16_07650	BBP16_09870	50S ribosomal protein L31; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L28; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL28 family.	0.980
rpmE2	rpmF	BBP16_07650	BBP16_02240	50S ribosomal protein L31; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L32; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL32 family.	0.980
rpmE2	rpmH	BBP16_07650	BBP16_06160	50S ribosomal protein L31; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L34; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL34 family.	0.947
rpmE2	rpmI	BBP16_07650	BBP16_03725	50S ribosomal protein L31; Derived by automated computational analysis using gene prediction method: Protein Homology.	50S ribosomal protein L35; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL35 family.	0.977
rpmE2	rpsT	BBP16_07650	BBP16_02550	50S ribosomal protein L31; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S20; Binds directly to 16S ribosomal RNA.	0.981
rpmE2	rpsU	BBP16_07650	BBP16_00895	50S ribosomal protein L31; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S21; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bS21 family.	0.964
rpmF	rpmB	BBP16_02240	BBP16_09870	50S ribosomal protein L32; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL32 family.	50S ribosomal protein L28; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL28 family.	0.982
rpmF	rpmE2	BBP16_02240	BBP16_07650	50S ribosomal protein L32; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL32 family.	50S ribosomal protein L31; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.980
rpmF	rpmH	BBP16_02240	BBP16_06160	50S ribosomal protein L32; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL32 family.	50S ribosomal protein L34; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL34 family.	0.977
rpmF	rpmI	BBP16_02240	BBP16_03725	50S ribosomal protein L32; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL32 family.	50S ribosomal protein L35; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL35 family.	0.981
rpmF	rpsT	BBP16_02240	BBP16_02550	50S ribosomal protein L32; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL32 family.	30S ribosomal protein S20; Binds directly to 16S ribosomal RNA.	0.980
rpmF	rpsU	BBP16_02240	BBP16_00895	50S ribosomal protein L32; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL32 family.	30S ribosomal protein S21; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bS21 family.	0.971
rpmH	rpmB	BBP16_06160	BBP16_09870	50S ribosomal protein L34; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL34 family.	50S ribosomal protein L28; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL28 family.	0.977
rpmH	rpmE2	BBP16_06160	BBP16_07650	50S ribosomal protein L34; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the bacterial ribosomal protein bL34 family.	50S ribosomal protein L31; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.947