LSM7 protein (Anas platyrhynchos) - STRING interaction network

Nodes:

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second shell of interactors

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Known Interactions

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experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

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textmining

co-expression

protein homology

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Cooccurrence

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[Homology]

Score

LSM7

LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated. (120 aa)

Predicted Functional Partners:

LSM5

0.999

LSM6

0.999

LSM3

0.999

LSM4

0.999

LSM8

0.993

SNRPD3

0.992

DDX6

0.988

SNRPF

0.988

SNRNP200

0.982

PRPF4

0.981

Your Current Organism:

Anas platyrhynchos

NCBI taxonomy Id: 8840
Other names: A. platyrhynchos platyrhynchos, Anas platyrhynchos platyrhynchos, common mallard, northern mallard

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
DDX6	LSM3	ENSAPLP00000006939	ENSAPLP00000014331	DEAD-box helicase 6; Belongs to the DEAD box helicase family.	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.853
DDX6	LSM4	ENSAPLP00000006939	ENSAPLP00000018959	DEAD-box helicase 6; Belongs to the DEAD box helicase family.	U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.923
DDX6	LSM5	ENSAPLP00000006939	ENSAPLP00000007822	DEAD-box helicase 6; Belongs to the DEAD box helicase family.	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	0.713
DDX6	LSM6	ENSAPLP00000006939	ENSAPLP00000012384	DEAD-box helicase 6; Belongs to the DEAD box helicase family.	LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated.	0.756
DDX6	LSM7	ENSAPLP00000006939	ENSAPLP00000025578	DEAD-box helicase 6; Belongs to the DEAD box helicase family.	LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated.	0.988
DDX6	SNRPD3	ENSAPLP00000006939	ENSAPLP00000008346	DEAD-box helicase 6; Belongs to the DEAD box helicase family.	Small nuclear ribonucleoprotein Sm D3.	0.463
DDX6	SNRPF	ENSAPLP00000006939	ENSAPLP00000025809	DEAD-box helicase 6; Belongs to the DEAD box helicase family.	Small nuclear ribonucleoprotein polypeptide F.	0.490
LSM3	DDX6	ENSAPLP00000014331	ENSAPLP00000006939	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	DEAD-box helicase 6; Belongs to the DEAD box helicase family.	0.853
LSM3	LSM4	ENSAPLP00000014331	ENSAPLP00000018959	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.999
LSM3	LSM5	ENSAPLP00000014331	ENSAPLP00000007822	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	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
LSM3	LSM6	ENSAPLP00000014331	ENSAPLP00000012384	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated.	0.999
LSM3	LSM7	ENSAPLP00000014331	ENSAPLP00000025578	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated.	0.999
LSM3	LSM8	ENSAPLP00000014331	ENSAPLP00000004665	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	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.	0.994
LSM3	PRPF4	ENSAPLP00000014331	ENSAPLP00000006166	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	Pre-mRNA processing factor 4.	0.976
LSM3	SNRNP200	ENSAPLP00000014331	ENSAPLP00000004009	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	Small nuclear ribonucleoprotein U5 subunit 200.	0.975
LSM3	SNRPD3	ENSAPLP00000014331	ENSAPLP00000008346	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	Small nuclear ribonucleoprotein Sm D3.	0.991
LSM3	SNRPF	ENSAPLP00000014331	ENSAPLP00000025809	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	Small nuclear ribonucleoprotein polypeptide F.	0.978
LSM4	DDX6	ENSAPLP00000018959	ENSAPLP00000006939	U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	DEAD-box helicase 6; Belongs to the DEAD box helicase family.	0.923
LSM4	LSM3	ENSAPLP00000018959	ENSAPLP00000014331	U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.999
LSM4	LSM5	ENSAPLP00000018959	ENSAPLP00000007822	U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	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

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Network Stats

number of nodes:

11

number of edges:

32

average node degree:

5.82

avg. local clustering coefficient:

0.814

expected number of edges:

31

PPI enrichment p-value:

0.42

your network does not have significantly more
interactions than expected (what does that mean?)

Functional enrichments in your networkNote: some enrichments may be expected here (why?)
disable highlight explain columns

Biological Process (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0009102

Biotin biosynthetic process

4 of 6

2.29

2.43

2.01e-05

GO:0072330

Monocarboxylic acid biosynthetic process

5 of 30

1.68

1.98

2.19e-05

GO:0046394

Carboxylic acid biosynthetic process

6 of 107

1.21

1.17

0.00022

GO:0044281

Small molecule metabolic process

7 of 429

0.67

0.46

0.0126

GO:0071704

Organic substance metabolic process

10 of 1181

0.39

0.28

0.0258

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:36584052

(2022) The inside scoop: Comparative genomics of two intranuclear bacteria, Candidatus Berkiella cookevillensis and Candidatus Berkiella aquae.

4 of 114

1.01

0.78

0.0028

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:1111

Biotin metabolic process

4 of 5

2.37

2.7

6.44e-06

CL:1034

Mixed, incl. Vitamin biosynthetic process, and Coenzyme A metabolic process

5 of 45

1.51

1.59

9.73e-05

CL:842

Small molecule biosynthetic process, and Nucleotide biosynthetic process

6 of 141

1.09

0.97

0.00055

CL:1311

Phosphopantetheine, and Fatty acid synthase activity

2 of 5

2.06

0.85

0.0254

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00780

Biotin metabolism

5 of 26

1.75

2.32

3.19e-06

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0093

Biotin biosynthesis

2 of 3

2.29

0.9

0.0221

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