LOC100339876 protein (Oryctolagus cuniculus)

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

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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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Cooccurrence

Coexpression

Experiments

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[Homology]

Score

LOC100339876

Olfactory receptor. (318 aa)

Predicted Functional Partners:

GNB1

0.696

GRK3

0.683

PRKACB

0.664

Your Current Organism:

Oryctolagus cuniculus

NCBI taxonomy Id: 9986
Other names: European rabbit, Japanese white rabbit, Lepus cuniculus, New Zealand rabbit, O. cuniculus, domestic rabbit, rabbit, rabbits

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
GNB1	GRK3	ENSOCUP00000008676	ENSOCUP00000022116	G protein subunit beta 1.	G protein-coupled receptor kinase; Belongs to the protein kinase superfamily. AGC Ser/Thr protein kinase family. GPRK subfamily.	0.812
GNB1	LOC100339876	ENSOCUP00000008676	ENSOCUP00000024102	G protein subunit beta 1.	Olfactory receptor.	0.696
GNB1	PRKACB	ENSOCUP00000008676	ENSOCUP00000043583	G protein subunit beta 1.	Protein kinase cAMP-activated catalytic subunit beta; Belongs to the protein kinase superfamily.	0.937
GRK3	GNB1	ENSOCUP00000022116	ENSOCUP00000008676	G protein-coupled receptor kinase; Belongs to the protein kinase superfamily. AGC Ser/Thr protein kinase family. GPRK subfamily.	G protein subunit beta 1.	0.812
GRK3	LOC100339876	ENSOCUP00000022116	ENSOCUP00000024102	G protein-coupled receptor kinase; Belongs to the protein kinase superfamily. AGC Ser/Thr protein kinase family. GPRK subfamily.	Olfactory receptor.	0.683
LOC100339876	GNB1	ENSOCUP00000024102	ENSOCUP00000008676	Olfactory receptor.	G protein subunit beta 1.	0.696
LOC100339876	GRK3	ENSOCUP00000024102	ENSOCUP00000022116	Olfactory receptor.	G protein-coupled receptor kinase; Belongs to the protein kinase superfamily. AGC Ser/Thr protein kinase family. GPRK subfamily.	0.683
LOC100339876	PRKACB	ENSOCUP00000024102	ENSOCUP00000043583	Olfactory receptor.	Protein kinase cAMP-activated catalytic subunit beta; Belongs to the protein kinase superfamily.	0.664
PRKACB	GNB1	ENSOCUP00000043583	ENSOCUP00000008676	Protein kinase cAMP-activated catalytic subunit beta; Belongs to the protein kinase superfamily.	G protein subunit beta 1.	0.937
PRKACB	LOC100339876	ENSOCUP00000043583	ENSOCUP00000024102	Protein kinase cAMP-activated catalytic subunit beta; Belongs to the protein kinase superfamily.	Olfactory receptor.	0.664

Network Stats

number of nodes:

11

number of edges:

34

average node degree:

6.18

avg. local clustering coefficient:

0.815

expected number of edges:

11

PPI enrichment p-value:

4.94e-08

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:0006289

Nucleotide-excision repair

5 of 35

2.34

3.36

2.46e-07

GO:0006354

DNA-templated transcription, elongation

4 of 26

2.37

2.56

1.23e-05

GO:0006283

Transcription-coupled nucleotide-excision repair

3 of 7

2.82

2.25

7.60e-05

GO:0006368

Transcription elongation from RNA polymerase II promoter

3 of 24

2.28

1.74

0.00050

GO:0009411

Response to UV

4 of 84

1.86

1.67

0.00034

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0000993

RNA polymerase II complex binding

3 of 32

2.16

1.29

0.0036

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0008023

Transcription elongation factor complex

4 of 44

2.14

2.31

2.55e-05

GO:0016593

Cdc73/Paf1 complex

2 of 7

2.64

1.49

0.0019

GO:0000109

Nucleotide-excision repair complex

2 of 6

2.71

1.49

0.0019

GO:0031464

Cul4A-RING E3 ubiquitin ligase complex

2 of 10

2.48

1.36

0.0031

GO:0016591

RNA polymerase II, holoenzyme

3 of 69

1.82

1.34

0.0019

(more ...)

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:27507608

(2017) Cockayne syndrome: Clinical features, model systems and pathways.

4 of 8

2.88

2.87

5.56e-06

PMID:30753618

(2019) Structural basis of ubiquitin recognition by the winged-helix domain of Cockayne syndrome group B protein.

3 of 8

2.76

1.52

0.0017

PMID:32649862

(2020) A Genetic Map of the Response to DNA Damage in Human Cells.

4 of 50

2.09

1.44

0.0017

PMID:33007515

(2020) Envisioning how the prototypic molecular machine TFIIH functions in transcription initiation and DNA repair.

3 of 17

2.43

1.18

0.0067

PMID:36077479

(2022) Genome of Laudakia sacra Provides New Insights into High-Altitude Adaptation of Ectotherms.

3 of 34

2.13

0.78

0.0362

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:7860

Nucleotide-excision repair factor 1 complex, and Double-strand break repair via classical nonhomologous end joining

3 of 5

2.96

2.39

4.45e-05

CL:9183

Mixed, incl. BAT3 complex binding, and Zinc finger, SIAH-type

2 of 5

2.79

1.1

0.0104

CL:7139

RNA Polymerase II Pre-transcription Events, and Mediator complex

3 of 121

1.58

0.67

0.0448

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

gga03420

Nucleotide excision repair

5 of 35

2.34

4.14

4.50e-09

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

GGA-6781823

Formation of TC-NER Pre-Incision Complex

3 of 38

2.08

1.28

0.0035

GGA-6782210

Gap-filling DNA repair synthesis and ligation in TC-NER

3 of 43

2.03

1.27

0.0035

GGA-6782135

Dual incision in TC-NER

3 of 46

2.0

1.27

0.0035

GGA-353303

Nucleotide Excision Repair

2 of 12

2.41

1.1

0.0094

GGA-73762

RNA Polymerase I Transcription Initiation

2 of 31

1.99

0.74

0.0404

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0008023

Transcription elongation factor complex

3 of 37

2.09

1.53

0.0011

GOCC:0016593

Cdc73/Paf1 complex

2 of 8

2.58

1.37

0.0031

GOCC:0016591

RNA polymerase II, holoenzyme

3 of 63

1.86

1.36

0.0018

GOCC:0000109

Nucleotide-excision repair complex

2 of 10

2.48

1.32

0.0037

GOCC:0031464

Cul4A-RING E3 ubiquitin ligase complex

2 of 11

2.44

1.31

0.0039

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0234

DNA repair

3 of 76

1.78

1.08

0.0068

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