HDID_LOCUS5938 protein (Hymenolepis diminuta)

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

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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:

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Gene Fusion

Cooccurrence

Coexpression

Experiments

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[Homology]

Score

HDID_LOCUS5938

SCP domain-containing protein. (158 aa)

Predicted Functional Partners:

HDID_LOCUS3682

0.554

HDID_LOCUS7455

0.408

HDID_LOCUS3365

0.407

HDID_LOCUS4339

0.402

Your Current Organism:

Hymenolepis diminuta

NCBI taxonomy Id: 6216
Other names: H. diminuta, rat tapeworm

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

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... functional annotations:

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a tab-delimited file containing all known functional terms of protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
HDID_LOCUS3365	HDID_LOCUS3682	A0A0R3SEY5	A0A0R3SFQ1	Uncharacterized protein; Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	Uncharacterized protein.	0.523
HDID_LOCUS3365	HDID_LOCUS4339	A0A0R3SEY5	A0A0R3SHC6	Uncharacterized protein; Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	Uncharacterized protein.	0.864
HDID_LOCUS3365	HDID_LOCUS5938	A0A0R3SEY5	A0A0R3SLX5	Uncharacterized protein; Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	SCP domain-containing protein.	0.407
HDID_LOCUS3365	HDID_LOCUS7455	A0A0R3SEY5	A0A0R3SQS7	Uncharacterized protein; Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	Uncharacterized protein.	0.875
HDID_LOCUS3682	HDID_LOCUS3365	A0A0R3SFQ1	A0A0R3SEY5	Uncharacterized protein.	Uncharacterized protein; Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.523
HDID_LOCUS3682	HDID_LOCUS5938	A0A0R3SFQ1	A0A0R3SLX5	Uncharacterized protein.	SCP domain-containing protein.	0.554
HDID_LOCUS4339	HDID_LOCUS3365	A0A0R3SHC6	A0A0R3SEY5	Uncharacterized protein.	Uncharacterized protein; Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.864
HDID_LOCUS4339	HDID_LOCUS5938	A0A0R3SHC6	A0A0R3SLX5	Uncharacterized protein.	SCP domain-containing protein.	0.402
HDID_LOCUS5938	HDID_LOCUS3365	A0A0R3SLX5	A0A0R3SEY5	SCP domain-containing protein.	Uncharacterized protein; Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.407
HDID_LOCUS5938	HDID_LOCUS3682	A0A0R3SLX5	A0A0R3SFQ1	SCP domain-containing protein.	Uncharacterized protein.	0.554
HDID_LOCUS5938	HDID_LOCUS4339	A0A0R3SLX5	A0A0R3SHC6	SCP domain-containing protein.	Uncharacterized protein.	0.402
HDID_LOCUS5938	HDID_LOCUS7455	A0A0R3SLX5	A0A0R3SQS7	SCP domain-containing protein.	Uncharacterized protein.	0.408
HDID_LOCUS7455	HDID_LOCUS3365	A0A0R3SQS7	A0A0R3SEY5	Uncharacterized protein.	Uncharacterized protein; Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.875
HDID_LOCUS7455	HDID_LOCUS5938	A0A0R3SQS7	A0A0R3SLX5	Uncharacterized protein.	SCP domain-containing protein.	0.408

Network Stats

number of nodes:

11

number of edges:

41

average node degree:

7.45

avg. local clustering coefficient:

0.838

expected number of edges:

28

PPI enrichment p-value:

0.0102

your network has significantly more interactions
than expected (what does that mean?)

Functional enrichments in your networkNote: some enrichments may be expected here (why?)
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Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003735

Structural constituent of ribosome

4 of 55

1.41

0.88

0.0102

GO:0019843

rRNA binding

3 of 42

1.4

0.64

0.0459

GO:0003723

RNA binding

4 of 110

1.11

0.56

0.0459

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0022625

Cytosolic large ribosomal subunit

4 of 23

1.78

1.88

7.73e-05

GO:0032991

Protein-containing complex

5 of 227

0.89

0.67

0.0036

GO:0005829

Cytosol

5 of 312

0.75

0.51

0.0117

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:26617599

(2015) Comparative Genomic Insights into Ecophysiology of Neutrophilic, Microaerophilic Iron Oxidizing Bacteria.

3 of 16

1.82

0.98

0.0117

PMID:28083017

(2016) Distribution of Hydrogenases in Cyanobacteria: A Phylum-Wide Genomic Survey.

3 of 19

1.74

0.97

0.0117

PMID:36545193

(2022) Characterizing corn-straw-degrading actinomycetes and evaluating application efficiency in straw-returning experiments.

3 of 29

1.56

0.83

0.0195

PMID:21936919

(2011) Genomic insights into an obligate epibiotic bacterial predator: Micavibrio aeruginosavorus ARL-13.

3 of 32

1.52

0.82

0.0195

PMID:19148287

(2009) Complete genome sequence of the aerobic CO-oxidizing thermophile Thermomicrobium roseum.

3 of 31

1.53

0.82

0.0195

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:1368

HotDog domain superfamily, and Epoxide hydrolase-like

3 of 6

2.24

1.84

0.00030

CL:1322

Mixed, incl. Lipid oxidation, and Acyl-CoA dehydrogenase, middle domain

4 of 29

1.68

1.59

0.00030

CL:1250

Mixed, incl. Fatty acid metabolic process, and Carbon fixation pathways in prokaryotes

6 of 93

1.35

1.43

8.61e-05

CL:1252

Carbon fixation pathways in prokaryotes, and Fatty acid metabolic process

5 of 64

1.44

1.39

0.00028

CL:148

Cytosolic large ribosomal subunit, and Small ribosomal subunit

3 of 23

1.66

1.1

0.0050

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

cau03010

Ribosome

4 of 55

1.41

1.15

0.0016

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0036125

Fatty acid beta-oxidation multienzyme complex

2 of 5

2.15

0.76

0.0393

GOCC:0022625

Cytosolic large ribosomal subunit

2 of 5

2.15

0.76

0.0393

GOCC:0005840

Ribosome

3 of 39

1.43

0.67

0.0393

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0689

Ribosomal protein

4 of 53

1.42

1.09

0.0027

KW-0699

rRNA-binding

3 of 39

1.43

0.86

0.0130

KW-0276

Fatty acid metabolism

2 of 13

1.73

0.72

0.0398

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF16113

Enoyl-CoA hydratase/isomerase

3 of 7

2.18

1.53

0.0012

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