(15 nodes) mRNA decay by 5 to 3 exoribonuclease network (Verticillium alfalfae)

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:
	VDBG_01017	Pentatricopeptide repeat protein. (710 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. (80 aa)
	VDBG_01955	RH73529p. (141 aa)
	VDBG_04160	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. (1383 aa)
	VDBG_03481	Topoisomerase II. (759 aa)
	VDBG_03510	ATP-dependent RNA helicase dhh-1; Belongs to the DEAD box helicase family. (390 aa)
	VDBG_05100	Uncharacterized protein. (321 aa)
	VDBG_05588	Lsm14a protein. (108 aa)
	VDBG_06107	LSM domain-containing protein. (105 aa)
	VDBG_07053	Uncharacterized protein. (1025 aa)
	VDBG_07160	Uncharacterized protein. (221 aa)
	VDBG_06992	Uncharacterized protein. (286 aa)
	VDBG_06994	mRNA-decapping enzyme. (169 aa)
	VDBG_09512	Uncharacterized protein. (276 aa)
	VDBG_10216	YjeF_N domain-containing protein. (736 aa)

Your Current Organism:

Verticillium alfalfae

NCBI taxonomy Id: 526221
Other names: V. alfalfae VaMs.102, Verticillium alfalfae VaMs.102

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
LSM5	VDBG_01017	C9S8V5	C9S8C9	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	Pentatricopeptide repeat protein.	0.999
LSM5	VDBG_01955	C9S8V5	C9SBW2	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	RH73529p.	0.999
LSM5	VDBG_03481	C9S8V5	C9SFW8	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	Topoisomerase II.	0.999
LSM5	VDBG_03510	C9S8V5	C9SFZ7	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	ATP-dependent RNA helicase dhh-1; Belongs to the DEAD box helicase family.	0.798
LSM5	VDBG_04160	C9S8V5	C9SFV6	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	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.	0.782
LSM5	VDBG_05100	C9S8V5	C9SJX3	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	Uncharacterized protein.	0.999
LSM5	VDBG_06107	C9S8V5	C9SMI3	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	LSM domain-containing protein.	0.999
LSM5	VDBG_06992	C9S8V5	C9SR80	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	Uncharacterized protein.	0.590
LSM5	VDBG_06994	C9S8V5	C9SR82	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	mRNA-decapping enzyme.	0.590
LSM5	VDBG_07053	C9S8V5	C9SQ18	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	Uncharacterized protein.	0.993
LSM5	VDBG_07160	C9S8V5	C9SQC5	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	Uncharacterized protein.	0.999
LSM5	VDBG_09512	C9S8V5	C9SXL2	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	Uncharacterized protein.	0.861
LSM5	VDBG_10216	C9S8V5	C9SZ91	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	YjeF_N domain-containing protein.	0.782
VDBG_01017	LSM5	C9S8C9	C9S8V5	Pentatricopeptide repeat protein.	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
VDBG_01017	VDBG_01955	C9S8C9	C9SBW2	Pentatricopeptide repeat protein.	RH73529p.	0.999
VDBG_01017	VDBG_03481	C9S8C9	C9SFW8	Pentatricopeptide repeat protein.	Topoisomerase II.	0.999
VDBG_01017	VDBG_03510	C9S8C9	C9SFZ7	Pentatricopeptide repeat protein.	ATP-dependent RNA helicase dhh-1; Belongs to the DEAD box helicase family.	0.954
VDBG_01017	VDBG_04160	C9S8C9	C9SFV6	Pentatricopeptide repeat protein.	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.	0.834
VDBG_01017	VDBG_05100	C9S8C9	C9SJX3	Pentatricopeptide repeat protein.	Uncharacterized protein.	0.999
VDBG_01017	VDBG_06107	C9S8C9	C9SMI3	Pentatricopeptide repeat protein.	LSM domain-containing protein.	0.999