(16 nodes) mRNA decay by 5 to 3 exoribonuclease, and Eukaryotic initiation factor 4G binding network (Lachancea thermotolerans)

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:
	C5DC12_LACTC	KLTH0A06974p. (868 aa)
	LSM8	U6 snRNA-associated Sm-like protein LSm8; Plays role in pre-mRNA splicing as component of the U4/U6-U5 tri-snRNP complex that is involved in spliceosome assembly, and as component of the precatalytic spliceosome (spliceosome B complex). The heptameric LSM2-8 complex binds specifically to the 3'-terminal U-tract of U6 snRNA. (110 aa)
	C5DCR0_LACTC	KLTH0B05104p. (893 aa)
	C5DCU5_LACTC	KLTH0B05896p. (111 aa)
	C5DDW2_LACTC	KLTH0C04268p. (450 aa)
	LSM4	U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA. (175 aa)
	C5DFL4_LACTC	KLTH0D16082p. (81 aa)
	C5DHT9_LACTC	5'-3' exoribonuclease 1; Multifunctional protein that exhibits several independent functions at different levels of the cellular processes. 5'-3' exonuclease component of the nonsense-mediated mRNA decay (NMD) which is a highly conserved mRNA degradation pathway, an RNA surveillance system whose role is to identify and rid cells of mRNA with premature termination codons and thus prevents accumulation of potentially harmful truncated proteins. (1496 aa)
	C5DJ76_LACTC	KLTH0F14124p. (328 aa)
	C5DJD8_LACTC	KLTH0F15620p. (84 aa)
	C5DJX3_LACTC	KLTH0F19822p. (204 aa)
	LSM1	U6 snRNA-associated Sm-like protein LSm1; Component of the cytoplasmic LSM1-LSM7 complex which is involved in mRNA degradation. (160 aa)
	C5E223_LACTC	KLTH0H01562p; Belongs to the DEAD box helicase family. (491 aa)
	LSM5	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA. (81 aa)
	C5E2V5_LACTC	U6 snRNA-associated Sm-like protein LSm2; Binds specifically to the 3'-terminal U-tract of U6 snRNA. (95 aa)
	C5E3I9_LACTC	KLTH0H13948p. (497 aa)

Your Current Organism:

Lachancea thermotolerans

NCBI taxonomy Id: 559295
Other names: Kluyveromyces thermotolerans CBS 6340, L. thermotolerans CBS 6340, Lachancea thermotolerans CBS 6340

Send network to Cytoscape

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
C5DC12_LACTC	C5DCR0_LACTC	C5DC12	C5DCR0	KLTH0A06974p.	KLTH0B05104p.	0.996
C5DC12_LACTC	C5DCU5_LACTC	C5DC12	C5DCU5	KLTH0A06974p.	KLTH0B05896p.	0.999
C5DC12_LACTC	C5DFL4_LACTC	C5DC12	C5DFL4	KLTH0A06974p.	KLTH0D16082p.	0.999
C5DC12_LACTC	C5DHT9_LACTC	C5DC12	C5DHT9	KLTH0A06974p.	5'-3' exoribonuclease 1; Multifunctional protein that exhibits several independent functions at different levels of the cellular processes. 5'-3' exonuclease component of the nonsense-mediated mRNA decay (NMD) which is a highly conserved mRNA degradation pathway, an RNA surveillance system whose role is to identify and rid cells of mRNA with premature termination codons and thus prevents accumulation of potentially harmful truncated proteins.	0.978
C5DC12_LACTC	C5DJ76_LACTC	C5DC12	C5DJ76	KLTH0A06974p.	KLTH0F14124p.	0.651
C5DC12_LACTC	C5DJD8_LACTC	C5DC12	C5DJD8	KLTH0A06974p.	KLTH0F15620p.	0.999
C5DC12_LACTC	C5DJX3_LACTC	C5DC12	C5DJX3	KLTH0A06974p.	KLTH0F19822p.	0.939
C5DC12_LACTC	C5E223_LACTC	C5DC12	C5E223	KLTH0A06974p.	KLTH0H01562p; Belongs to the DEAD box helicase family.	0.997
C5DC12_LACTC	C5E2V5_LACTC	C5DC12	C5E2V5	KLTH0A06974p.	U6 snRNA-associated Sm-like protein LSm2; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.999
C5DC12_LACTC	C5E3I9_LACTC	C5DC12	C5E3I9	KLTH0A06974p.	KLTH0H13948p.	0.944
C5DC12_LACTC	LSM1	C5DC12	C5DKN0	KLTH0A06974p.	U6 snRNA-associated Sm-like protein LSm1; Component of the cytoplasmic LSM1-LSM7 complex which is involved in mRNA degradation.	0.999
C5DC12_LACTC	LSM4	C5DC12	C5DE48	KLTH0A06974p.	U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.999
C5DC12_LACTC	LSM5	C5DC12	C5E2T7	KLTH0A06974p.	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	0.999
C5DCR0_LACTC	C5DC12_LACTC	C5DCR0	C5DC12	KLTH0B05104p.	KLTH0A06974p.	0.996
C5DCR0_LACTC	C5DCU5_LACTC	C5DCR0	C5DCU5	KLTH0B05104p.	KLTH0B05896p.	0.842
C5DCR0_LACTC	C5DFL4_LACTC	C5DCR0	C5DFL4	KLTH0B05104p.	KLTH0D16082p.	0.844
C5DCR0_LACTC	C5DHT9_LACTC	C5DCR0	C5DHT9	KLTH0B05104p.	5'-3' exoribonuclease 1; Multifunctional protein that exhibits several independent functions at different levels of the cellular processes. 5'-3' exonuclease component of the nonsense-mediated mRNA decay (NMD) which is a highly conserved mRNA degradation pathway, an RNA surveillance system whose role is to identify and rid cells of mRNA with premature termination codons and thus prevents accumulation of potentially harmful truncated proteins.	0.996
C5DCR0_LACTC	C5DJ76_LACTC	C5DCR0	C5DJ76	KLTH0B05104p.	KLTH0F14124p.	0.892
C5DCR0_LACTC	C5DJD8_LACTC	C5DCR0	C5DJD8	KLTH0B05104p.	KLTH0F15620p.	0.706
C5DCR0_LACTC	C5DJX3_LACTC	C5DCR0	C5DJX3	KLTH0B05104p.	KLTH0F19822p.	0.999