EEB80386.1 protein (gamma proteobacterium HTCC2148)

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

Co-occurrence

Co-expression

Experiments

Databases

Textmining

[Homology]

Score

EEB80386.1

RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class). (215 aa)

Predicted Functional Partners:

rplM

0.792

EEB80574.1

0.773

rplC

0.745

trmE

0.745

rplQ

0.739

ylqF

0.732

rsfS

0.728

rplX

0.725

rplK

0.721

rnr

0.686

Your Current Organism:

gamma proteobacterium HTCC2148

NCBI taxonomy Id: 247634
Other names: m. gamma proteobacterium HTCC2148, marine gamma proteobacterium HTCC2148

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

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

... as short tabular text output:

download

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

... as tabular text output:

download

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

... as an XML summary:

download

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

... protein node degrees:

download

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

... network coordinates:

download

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

... protein sequences:

download

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

... protein annotations:

download

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

... functional annotations:

download

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
EEB80386.1	EEB80574.1	GPB2148_3203	GPB2148_3393	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	Hypothetical protein.	0.773
EEB80386.1	rnr	GPB2148_3203	GPB2148_2308	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	Ribonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs.	0.686
EEB80386.1	rplC	GPB2148_3203	GPB2148_1098	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	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.	0.745
EEB80386.1	rplK	GPB2148_3203	GPB2148_3407	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	Ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	0.721
EEB80386.1	rplM	GPB2148_3203	GPB2148_3305	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	Ribosomal protein L13; This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.	0.792
EEB80386.1	rplQ	GPB2148_3203	GPB2148_1119	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	[J] COG0203 Ribosomal protein L17; Belongs to the bacterial ribosomal protein bL17 family.	0.739
EEB80386.1	rplX	GPB2148_3203	GPB2148_1090	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	Ribosomal protein L24; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	0.725
EEB80386.1	rsfS	GPB2148_3203	GPB2148_207	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	Iojap family protein; Functions as a ribosomal silencing factor. Interacts with ribosomal protein L14 (rplN), blocking formation of intersubunit bridge B8. Prevents association of the 30S and 50S ribosomal subunits and the formation of functional ribosomes, thus repressing translation.	0.728
EEB80386.1	trmE	GPB2148_3203	GPB2148_352	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	tRNA modification GTPase TrmE; Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. TrmE GTPase family.	0.745
EEB80386.1	ylqF	GPB2148_3203	GPB2148_1495	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	Putative GTPase; Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity; Belongs to the TRAFAC class YlqF/YawG GTPase family. MTG1 subfamily.	0.732
EEB80574.1	EEB80386.1	GPB2148_3393	GPB2148_3203	Hypothetical protein.	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	0.773
rnr	EEB80386.1	GPB2148_2308	GPB2148_3203	Ribonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs.	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	0.686
rnr	rplC	GPB2148_2308	GPB2148_1098	Ribonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs.	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.	0.542
rnr	rplM	GPB2148_2308	GPB2148_3305	Ribonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs.	Ribosomal protein L13; This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.	0.654
rnr	rplX	GPB2148_2308	GPB2148_1090	Ribonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs.	Ribosomal protein L24; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	0.658
rplC	EEB80386.1	GPB2148_1098	GPB2148_3203	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.	RNA methyltransferase, TrmH family; [J] COG0219 Predicted rRNA methylase (SpoU class).	0.745
rplC	rnr	GPB2148_1098	GPB2148_2308	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.	Ribonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs.	0.542
rplC	rplK	GPB2148_1098	GPB2148_3407	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.	Ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	0.999
rplC	rplM	GPB2148_1098	GPB2148_3305	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.	Ribosomal protein L13; This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.	0.999
rplC	rplQ	GPB2148_1098	GPB2148_1119	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.	[J] COG0203 Ribosomal protein L17; Belongs to the bacterial ribosomal protein bL17 family.	0.997