LEMD1 protein (Canis lupus familiaris) - STRING interaction network

Nodes:

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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

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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:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

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[Homology]

Score

LEMD1

LEM domain containing 1. (210 aa)

Predicted Functional Partners:

ZBTB7C

0.738

COL25A1

0.735

LEPROT

0.685

ZBTB20

0.574

SHOX

0.571

PCSK6

0.563

TSGA10

0.563

COL14A1

0.561

COL6A6

0.560

GDF3

0.560

Your Current Organism:

Canis lupus familiaris

NCBI taxonomy Id: 9615
Other names: C. lupus familiaris, Canis canis, Canis domesticus, Canis familiaris, beagle dog, beagle dogs, dog, dogs

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
COL14A1	COL25A1	ENSCAFP00000051570	ENSCAFP00000047240	Collagen type XIV alpha 1 chain.	Collagen type XXV alpha 1 chain.	0.560
COL14A1	COL6A6	ENSCAFP00000051570	ENSCAFP00000009041	Collagen type XIV alpha 1 chain.	Collagen type VI alpha 6 chain.	0.494
COL14A1	LEMD1	ENSCAFP00000051570	ENSCAFP00000058377	Collagen type XIV alpha 1 chain.	LEM domain containing 1.	0.561
COL14A1	ZBTB7C	ENSCAFP00000051570	ENSCAFP00000028146	Collagen type XIV alpha 1 chain.	Zinc finger and BTB domain containing 7C.	0.466
COL25A1	COL14A1	ENSCAFP00000047240	ENSCAFP00000051570	Collagen type XXV alpha 1 chain.	Collagen type XIV alpha 1 chain.	0.560
COL25A1	COL6A6	ENSCAFP00000047240	ENSCAFP00000009041	Collagen type XXV alpha 1 chain.	Collagen type VI alpha 6 chain.	0.569
COL25A1	GDF3	ENSCAFP00000047240	ENSCAFP00000041841	Collagen type XXV alpha 1 chain.	Growth differentiation factor 3.	0.466
COL25A1	LEMD1	ENSCAFP00000047240	ENSCAFP00000058377	Collagen type XXV alpha 1 chain.	LEM domain containing 1.	0.735
COL25A1	LEPROT	ENSCAFP00000047240	ENSCAFP00000057090	Collagen type XXV alpha 1 chain.	Uncharacterized protein.	0.561
COL25A1	PCSK6	ENSCAFP00000047240	ENSCAFP00000015518	Collagen type XXV alpha 1 chain.	Proprotein convertase subtilisin/kexin type 6; Belongs to the peptidase S8 family.	0.474
COL25A1	SHOX	ENSCAFP00000047240	ENSCAFP00000016165	Collagen type XXV alpha 1 chain.	Short stature homeobox.	0.487
COL25A1	ZBTB20	ENSCAFP00000047240	ENSCAFP00000015924	Collagen type XXV alpha 1 chain.	Zinc finger and BTB domain containing 20.	0.511
COL25A1	ZBTB7C	ENSCAFP00000047240	ENSCAFP00000028146	Collagen type XXV alpha 1 chain.	Zinc finger and BTB domain containing 7C.	0.654
COL6A6	COL14A1	ENSCAFP00000009041	ENSCAFP00000051570	Collagen type VI alpha 6 chain.	Collagen type XIV alpha 1 chain.	0.494
COL6A6	COL25A1	ENSCAFP00000009041	ENSCAFP00000047240	Collagen type VI alpha 6 chain.	Collagen type XXV alpha 1 chain.	0.569
COL6A6	LEMD1	ENSCAFP00000009041	ENSCAFP00000058377	Collagen type VI alpha 6 chain.	LEM domain containing 1.	0.560
COL6A6	ZBTB7C	ENSCAFP00000009041	ENSCAFP00000028146	Collagen type VI alpha 6 chain.	Zinc finger and BTB domain containing 7C.	0.464
GDF3	COL25A1	ENSCAFP00000041841	ENSCAFP00000047240	Growth differentiation factor 3.	Collagen type XXV alpha 1 chain.	0.466
GDF3	LEMD1	ENSCAFP00000041841	ENSCAFP00000058377	Growth differentiation factor 3.	LEM domain containing 1.	0.560
GDF3	ZBTB7C	ENSCAFP00000041841	ENSCAFP00000028146	Growth differentiation factor 3.	Zinc finger and BTB domain containing 7C.	0.453

page 1 of 3

Network Stats

number of nodes:

6

number of edges:

11

average node degree:

3.67

avg. local clustering coefficient:

0.933

expected number of edges:

5

PPI enrichment p-value:

0.0153

your network has 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:0006635

Fatty acid beta-oxidation

8 of 50

2.38

6.45

1.96e-14

GO:0046395

Carboxylic acid catabolic process

9 of 182

1.87

4.54

2.34e-13

GO:0006631

Fatty acid metabolic process

9 of 257

1.72

3.74

3.62e-12

GO:0009437

Carnitine metabolic process

3 of 10

2.66

2.49

2.41e-05

GO:0019752

Carboxylic acid metabolic process

10 of 611

1.39

2.44

3.94e-11

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016627

Oxidoreductase activity, acting on the CH-CH group of donors

5 of 56

2.13

2.99

6.81e-07

GO:0004095

Carnitine O-palmitoyltransferase activity

3 of 5

2.96

2.73

1.07e-05

GO:0003997

acyl-CoA oxidase activity

3 of 6

2.88

2.72

1.07e-05

GO:0050660

Flavin adenine dinucleotide binding

5 of 86

1.94

2.58

2.64e-06

GO:0003995

acyl-CoA dehydrogenase activity

3 of 11

2.61

2.47

2.60e-05

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005739

Mitochondrion

8 of 1190

1.01

0.96

0.00013

GO:0031966

Mitochondrial membrane

5 of 494

1.18

0.83

0.0063

GO:0005743

Mitochondrial inner membrane

4 of 323

1.27

0.78

0.0144

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:30918526

(2019) Maternal diet deficient in riboflavin induces embryonic death associated with alterations in the hepatic proteome of duck embryos.

6 of 27

2.53

5.04

1.27e-10

PMID:35073666

(2022) MicroRNA analysis reveals the role of miR-214 in duck adipocyte differentiation.

5 of 18

2.62

4.34

5.36e-09

PMID:28706492

(2017) Lower Expression of SLC27A1 Enhances Intramuscular Fat Deposition in Chicken via Down-Regulated Fatty Acid Oxidation Mediated by CPT1A.

4 of 14

2.64

3.26

7.72e-07

PMID:30365498

(2018) Proteome and microbiota analysis reveals alterations of liver-gut axis under different stocking density of Peking ducks.

4 of 22

2.44

2.95

2.26e-06

PMID:35950191

(2022) Integrated liver proteomics and metabolomics identify metabolic pathways affected by pantothenic acid deficiency in Pekin ducks.

5 of 62

2.09

2.93

7.72e-07

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:7416

Mixed, incl. Fatty acid beta-oxidation, and Fatty acid biosynthesis

9 of 91

2.17

6.25

1.43e-15

CL:7418

Fatty acid beta-oxidation, and CoA carboxylase activity

7 of 47

2.35

5.82

5.12e-13

CL:7426

Beta oxidation of hexanoyl-CoA to butanoyl-CoA, and acyl-CoA oxidase activity

5 of 12

2.8

5.26

1.24e-10

CL:7430

acyl-CoA oxidase activity, and long-chain-3-hydroxyacyl-CoA dehydrogenase activity

4 of 6

3.0

4.42

7.30e-09

CL:7500

Octanoyltransferase activity, and MaoC-like dehydratase domain

2 of 6

2.7

1.37

0.0032

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

apla00071

Fatty acid degradation

7 of 24

2.64

7.39

2.06e-15

apla01212

Fatty acid metabolism

7 of 47

2.35

6.16

6.90e-14

apla03320

PPAR signaling pathway

5 of 49

2.19

3.87

7.53e-09

apla00410

beta-Alanine metabolism

3 of 21

2.33

2.47

1.80e-05

apla00640

Propanoate metabolism

3 of 23

2.29

2.45

1.84e-05

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-8978868

Fatty acid metabolism

9 of 183

1.87

4.51

2.72e-13

MAP-200425

Carnitine metabolism

4 of 16

2.58

3.46

2.78e-07

MAP-556833

Metabolism of lipids

9 of 787

1.24

1.71

5.33e-08

MAP-77289

Mitochondrial Fatty Acid Beta-Oxidation

3 of 35

2.11

1.66

0.00060

MAP-77286

Mitochondrial fatty acid beta-oxidation of saturated fatty acids

2 of 10

2.48

1.17

0.0073

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005739

Mitochondrion

8 of 742

1.21

1.45

3.73e-06

GOCC:0043231

Intracellular membrane-bounded organelle

10 of 4962

0.48

0.32

0.0352

GOCC:0005737

Cytoplasm

10 of 5040

0.48

0.31

0.0352

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0274

FAD

4 of 49

2.09

2.47

9.41e-06

KW-0012

Acyltransferase

3 of 54

1.92

1.58

0.00065

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF02770

Acyl-CoA dehydrogenase, middle domain

5 of 13

2.76

4.85

7.25e-10

PF00755

Choline/Carnitine o-acyltransferase

3 of 7

2.81

2.51

2.51e-05

PF02771

Acyl-CoA dehydrogenase, N-terminal domain

3 of 10

2.66

2.38

3.98e-05

PF08028

Acyl-CoA dehydrogenase, C-terminal domain

3 of 11

2.61

2.37

3.98e-05

PF14749

Acyl-coenzyme A oxidase N-terminal

2 of 3

3.0

1.56

0.0015

(more ...)

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR046373

Acyl-CoA oxidase/dehydrogenase, middle domain superfamily

5 of 13

2.76

4.6

2.26e-09

IPR006091

Acyl-CoA oxidase/dehydrogenase, middle domain

5 of 13

2.76

4.6

2.26e-09

IPR036250

Acyl-CoA dehydrogenase-like, C-terminal

5 of 14

2.73

4.58

2.26e-09

IPR009100

Acyl-CoA dehydrogenase/oxidase, N-terminal and middle domain superfamily

5 of 14

2.73

4.58

2.26e-09

IPR037069

Acyl-CoA dehydrogenase/oxidase, N-terminal domain superfamily

4 of 12

2.7

3.55

2.28e-07

(more ...)

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