era protein (Mycoplasma californicum) - STRING interaction network

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.

Knowledge-based Evidence

from curated databases

textmining

Assay-based Predictions

experimentally determined

co-expression

Genomic Predictions

gene neighborhood

gene co-occurrence

gene fusions

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

era

GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology. (289 aa)

Predicted Functional Partners:

AIA29724.1

0.990

rpsG

0.896

rpsO

0.882

rpsJ

0.882

rpsI

0.881

rpsP

0.875

rpsL

0.875

rpsN

0.874

rpsE

0.867

rpsF

0.859

Your Current Organism:

Mycoplasma californicum

NCBI taxonomy Id: 2113
Other names: ATCC 33461, DSM 21477, M. californicum, NCTC 10189, strain ST-6

Export your current network:

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same PNG format, but at higher resolution

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SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

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TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

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TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

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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
AIA29724.1	era	MCFN_03045	MCFN_03035	Putative rRNA maturation factor; Derived by automated computational analysis using gene prediction method: Protein Homology.	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.990
era	AIA29724.1	MCFN_03035	MCFN_03045	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	Putative rRNA maturation factor; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.990
era	rpsE	MCFN_03035	MCFN_02335	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S5; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.867
era	rpsF	MCFN_03035	MCFN_02040	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S6.	0.859
era	rpsG	MCFN_03035	MCFN_00495	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S 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.	0.896
era	rpsI	MCFN_03035	MCFN_02895	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S9; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the universal ribosomal protein uS9 family.	0.881
era	rpsJ	MCFN_03035	MCFN_02425	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S10; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.882
era	rpsL	MCFN_03035	MCFN_00490	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S12; Interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone. Located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side and probably holding the rRNA structure together. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit.	0.875
era	rpsN	MCFN_03035	MCFN_02355	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	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.	0.874
era	rpsO	MCFN_03035	MCFN_01345	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S15; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.882
era	rpsP	MCFN_03035	MCFN_00265	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S16; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.875
rpsE	era	MCFN_02335	MCFN_03035	30S ribosomal protein S5; Derived by automated computational analysis using gene prediction method: Protein Homology.	GTP-binding protein Era; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.867
rpsE	rpsF	MCFN_02335	MCFN_02040	30S ribosomal protein S5; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S6.	0.996
rpsE	rpsG	MCFN_02335	MCFN_00495	30S ribosomal protein S5; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S 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.	0.997
rpsE	rpsI	MCFN_02335	MCFN_02895	30S ribosomal protein S5; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S9; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the universal ribosomal protein uS9 family.	0.996
rpsE	rpsJ	MCFN_02335	MCFN_02425	30S ribosomal protein S5; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S10; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.998
rpsE	rpsL	MCFN_02335	MCFN_00490	30S ribosomal protein S5; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S12; Interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone. Located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side and probably holding the rRNA structure together. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit.	0.997
rpsE	rpsN	MCFN_02335	MCFN_02355	30S ribosomal protein S5; Derived by automated computational analysis using gene prediction method: Protein Homology.	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.	0.999
rpsE	rpsO	MCFN_02335	MCFN_01345	30S ribosomal protein S5; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S15; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.993
rpsE	rpsP	MCFN_02335	MCFN_00265	30S ribosomal protein S5; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S16; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.994