BN2166_0044030 protein (Rhodotorula toruloides)

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query proteins and first shell of interactors

white nodes:
second shell of interactors

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a 3D structure is known or predicted

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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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Score

BN2166_0044030

WD40-repeat-containing domain protein. (555 aa)

Predicted Functional Partners:

BN2166_0033040

0.999

BN2166_0030530

0.999

BN2166_0036120

0.999

BN2166_0006950

0.998

BN2166_0034700

0.998

BN2166_0010620

0.998

BN2166_0020120

0.998

BN2166_0026170

0.998

BN2166_0070930

0.998

BN2166_0062470

0.998

Your Current Organism:

Rhodotorula toruloides

NCBI taxonomy Id: 5286
Other names: CBS 6016, IFO 8766, IGC 5615, MUCL 28631, NRRL Y-6987, R. toruloides, Rhodosporidium toruloides, Rhodotorula gracilis, Rhodotorula rubescens, Rhodotorula toruloides (I. Banno) Q.M. Wang, F.Y. Bai, M. Groenew. & Boekhout, 2015

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
BN2166_0006950	BN2166_0010620	A0A0K3C5A3	A0A0K3CDE7	U3 small nucleolar RNA-associated protein 4.	Ribosome biogenesis protein Noc4.	0.998
BN2166_0006950	BN2166_0020120	A0A0K3C5A3	A0A0K3CG26	U3 small nucleolar RNA-associated protein 4.	WD40-repeat-containing domain protein.	0.998
BN2166_0006950	BN2166_0026170	A0A0K3C5A3	A0A0K3CHR6	U3 small nucleolar RNA-associated protein 4.	annotation not available	0.999
BN2166_0006950	BN2166_0030530	A0A0K3C5A3	A0A0K3CF33	U3 small nucleolar RNA-associated protein 4.	FGENESH: predicted gene_5.598 protein.	0.999
BN2166_0006950	BN2166_0033040	A0A0K3C5A3	A0A0K3CES9	U3 small nucleolar RNA-associated protein 4.	annotation not available	0.999
BN2166_0006950	BN2166_0034700	A0A0K3C5A3	A0A0K3CCY6	U3 small nucleolar RNA-associated protein 4.	BY PROTMAP: gi\|814543081\|emb\|CEQ39458.1\| SPOSA6832_00967 [Sporidiobolus salmonicolor].	0.998
BN2166_0006950	BN2166_0036120	A0A0K3C5A3	A0A0K3CKL5	U3 small nucleolar RNA-associated protein 4.	Putative WD-repeat protein.	0.999
BN2166_0006950	BN2166_0044030	A0A0K3C5A3	A0A0K3CIS0	U3 small nucleolar RNA-associated protein 4.	WD40-repeat-containing domain protein.	0.998
BN2166_0006950	BN2166_0062470	A0A0K3C5A3	A0A0K3CT51	U3 small nucleolar RNA-associated protein 4.	U3 small nucleolar RNA-associated protein 10.	0.999
BN2166_0006950	BN2166_0070930	A0A0K3C5A3	A0A0K3CRA4	U3 small nucleolar RNA-associated protein 4.	Putative WD repeat protein.	0.999
BN2166_0010620	BN2166_0006950	A0A0K3CDE7	A0A0K3C5A3	Ribosome biogenesis protein Noc4.	U3 small nucleolar RNA-associated protein 4.	0.998
BN2166_0010620	BN2166_0020120	A0A0K3CDE7	A0A0K3CG26	Ribosome biogenesis protein Noc4.	WD40-repeat-containing domain protein.	0.996
BN2166_0010620	BN2166_0026170	A0A0K3CDE7	A0A0K3CHR6	Ribosome biogenesis protein Noc4.	annotation not available	0.997
BN2166_0010620	BN2166_0030530	A0A0K3CDE7	A0A0K3CF33	Ribosome biogenesis protein Noc4.	FGENESH: predicted gene_5.598 protein.	0.998
BN2166_0010620	BN2166_0033040	A0A0K3CDE7	A0A0K3CES9	Ribosome biogenesis protein Noc4.	annotation not available	0.997
BN2166_0010620	BN2166_0034700	A0A0K3CDE7	A0A0K3CCY6	Ribosome biogenesis protein Noc4.	BY PROTMAP: gi\|814543081\|emb\|CEQ39458.1\| SPOSA6832_00967 [Sporidiobolus salmonicolor].	0.997
BN2166_0010620	BN2166_0036120	A0A0K3CDE7	A0A0K3CKL5	Ribosome biogenesis protein Noc4.	Putative WD-repeat protein.	0.994
BN2166_0010620	BN2166_0044030	A0A0K3CDE7	A0A0K3CIS0	Ribosome biogenesis protein Noc4.	WD40-repeat-containing domain protein.	0.998
BN2166_0010620	BN2166_0062470	A0A0K3CDE7	A0A0K3CT51	Ribosome biogenesis protein Noc4.	U3 small nucleolar RNA-associated protein 10.	0.995
BN2166_0010620	BN2166_0070930	A0A0K3CDE7	A0A0K3CRA4	Ribosome biogenesis protein Noc4.	Putative WD repeat protein.	0.997

page 1 of 6

Network Stats

number of nodes:

11

number of edges:

20

average node degree:

3.64

avg. local clustering coefficient:

0.829

expected number of edges:

11

PPI enrichment p-value:

0.00667

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:0008654

Phospholipid biosynthetic process

8 of 37

1.88

4.02

3.63e-11

GO:0006650

Glycerophospholipid metabolic process

3 of 12

1.95

1.55

0.00079

GO:0044249

Cellular biosynthetic process

10 of 726

0.69

0.61

7.66e-05

GO:1901576

Organic substance biosynthetic process

10 of 756

0.67

0.59

9.28e-05

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016780

Phosphotransferase activity, for other substituted phosphate groups

3 of 10

2.03

1.26

0.0037

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:23500459

(2013) Bacterial lipids: metabolism and membrane homeostasis.

4 of 16

1.95

1.74

0.00030

PMID:32887610

(2020) Inducible intracellular membranes: molecular aspects and emerging applications.

3 of 7

2.18

1.45

0.0018

PMID:21255114

(2011) Remodelling of the Vibrio cholerae membrane by incorporation of exogenous fatty acids from host and aquatic environments.

2 of 2

2.55

0.87

0.0265

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:1421

Glycerophospholipid metabolism

7 of 13

2.28

5.18

8.75e-12

CL:1373

Fatty acid biosynthesis, and Glycerophospholipid metabolism

8 of 37

1.88

4.15

1.23e-11

CL:1423

Glycerophospholipid metabolism

4 of 5

2.45

3.13

1.00e-06

CL:1437

Alditol phosphate metabolic process, and Phospholipid biosynthesis

2 of 5

2.15

0.84

0.0281

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

rsp00564

Glycerophospholipid metabolism

7 of 17

2.16

5.04

4.64e-12

rsp00561

Glycerolipid metabolism

2 of 11

1.81

0.93

0.0154

rsp01110

Biosynthesis of secondary metabolites

8 of 346

0.91

0.9

3.09e-05

rsp01100

Metabolic pathways

8 of 774

0.56

0.4

0.0087

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0594

Phospholipid biosynthesis

5 of 6

2.47

4.18

6.87e-09

KW-0444

Lipid biosynthesis

6 of 25

1.93

3.44

8.27e-09

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