RvY_15810-2 protein (Ramazzottius varieornatus)

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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second shell of interactors

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proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

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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

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Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

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[Homology]

Score

RvY_15810-2

Uncharacterized protein. (287 aa)

Predicted Functional Partners:

RvY_00190-1

0.978

RvY_13448-1

0.909

RvY_13447-1

0.909

RvY_16622

0.903

RvY_16622-1

0.903

RvY_12693

0.805

RvY_12693-2

0.805

RvY_10828-1

0.723

RvY_08858

0.720

RvY_08858-2

0.720

Your Current Organism:

Ramazzottius varieornatus

NCBI taxonomy Id: 947166
Other names: R. varieornatus

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
RvY_00190-1	RvY_08858	A0A1D1ULT8	A0A1D1V7F3	Uncharacterized protein.	Uncharacterized protein; Belongs to the TUB family.	0.785
RvY_00190-1	RvY_08858-2	A0A1D1ULT8	A0A1D1V9W9	Uncharacterized protein.	Uncharacterized protein; Belongs to the TUB family.	0.785
RvY_00190-1	RvY_10828-1	A0A1D1ULT8	A0A1D1VE25	Uncharacterized protein.	Uncharacterized protein.	0.863
RvY_00190-1	RvY_12693	A0A1D1ULT8	A0A1D1VPJ1	Uncharacterized protein.	Uncharacterized protein.	0.955
RvY_00190-1	RvY_12693-2	A0A1D1ULT8	A0A1D1VT00	Uncharacterized protein.	TPR_REGION domain-containing protein.	0.948
RvY_00190-1	RvY_13447-1	A0A1D1ULT8	A0A1D1VQ28	Uncharacterized protein.	WD_REPEATS_REGION domain-containing protein.	0.993
RvY_00190-1	RvY_13448-1	A0A1D1ULT8	A0A1D1VMX4	Uncharacterized protein.	Uncharacterized protein.	0.991
RvY_00190-1	RvY_15810-2	A0A1D1ULT8	A0A1D1W432	Uncharacterized protein.	Uncharacterized protein.	0.978
RvY_00190-1	RvY_16622	A0A1D1ULT8	A0A1D1VZ51	Uncharacterized protein.	Uncharacterized protein.	0.990
RvY_00190-1	RvY_16622-1	A0A1D1ULT8	A0A1D1VZV6	Uncharacterized protein.	Uncharacterized protein.	0.990
RvY_08858	RvY_00190-1	A0A1D1V7F3	A0A1D1ULT8	Uncharacterized protein; Belongs to the TUB family.	Uncharacterized protein.	0.785
RvY_08858	RvY_12693	A0A1D1V7F3	A0A1D1VPJ1	Uncharacterized protein; Belongs to the TUB family.	Uncharacterized protein.	0.726
RvY_08858	RvY_12693-2	A0A1D1V7F3	A0A1D1VT00	Uncharacterized protein; Belongs to the TUB family.	TPR_REGION domain-containing protein.	0.726
RvY_08858	RvY_13447-1	A0A1D1V7F3	A0A1D1VQ28	Uncharacterized protein; Belongs to the TUB family.	WD_REPEATS_REGION domain-containing protein.	0.742
RvY_08858	RvY_13448-1	A0A1D1V7F3	A0A1D1VMX4	Uncharacterized protein; Belongs to the TUB family.	Uncharacterized protein.	0.742
RvY_08858	RvY_15810-2	A0A1D1V7F3	A0A1D1W432	Uncharacterized protein; Belongs to the TUB family.	Uncharacterized protein.	0.720
RvY_08858	RvY_16622	A0A1D1V7F3	A0A1D1VZ51	Uncharacterized protein; Belongs to the TUB family.	Uncharacterized protein.	0.718
RvY_08858	RvY_16622-1	A0A1D1V7F3	A0A1D1VZV6	Uncharacterized protein; Belongs to the TUB family.	Uncharacterized protein.	0.718
RvY_08858-2	RvY_00190-1	A0A1D1V9W9	A0A1D1ULT8	Uncharacterized protein; Belongs to the TUB family.	Uncharacterized protein.	0.785
RvY_08858-2	RvY_12693	A0A1D1V9W9	A0A1D1VPJ1	Uncharacterized protein; Belongs to the TUB family.	Uncharacterized protein.	0.726

page 1 of 5

Network Stats

number of nodes:

11

number of edges:

34

average node degree:

6.18

avg. local clustering coefficient:

0.748

expected number of edges:

17

PPI enrichment p-value:

0.000128

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:0006081

Cellular aldehyde metabolic process

4 of 34

2.16

2.15

6.10e-05

GO:0019413

Acetate biosynthetic process

3 of 14

2.42

2.04

0.00015

GO:0046187

Acetaldehyde catabolic process

3 of 15

2.4

2.03

0.00015

GO:0045991

Carbon catabolite activation of transcription

3 of 16

2.37

2.03

0.00015

GO:0006068

Ethanol catabolic process

3 of 17

2.34

2.02

0.00015

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0004084

Branched-chain-amino-acid transaminase activity

3 of 3

3.09

2.96

4.14e-06

GO:0004029

Aldehyde dehydrogenase (NAD+) activity

4 of 19

2.42

2.87

3.20e-06

GO:0043878

glyceraldehyde-3-phosphate dehydrogenase (NAD+) (non-phosphorylating) activity

3 of 14

2.42

2.21

7.01e-05

GO:0016706

2-oxoglutarate-dependent dioxygenase activity

2 of 22

2.05

0.87

0.0235

GO:0016491

Oxidoreductase activity

7 of 1317

0.82

0.63

0.0029

(more ...)

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:29389875

(2018) Physico-Chemical Conversion of Lignocellulose: Inhibitor Effects and Detoxification Strategies: A Mini Review.

3 of 12

2.49

2.94

2.63e-06

PMID:19832972

(2009) Cellulosic hydrolysate toxicity and tolerance mechanisms in Escherichia coli.

3 of 12

2.49

2.94

2.63e-06

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:11643

Acetate metabolic process, and FMN-dependent dehydrogenase

4 of 17

2.47

2.92

2.74e-06

CL:11648

Acetate metabolic process

3 of 6

2.79

2.54

2.20e-05

CL:14309

Valine, leucine and isoleucine biosynthesis

3 of 17

2.34

1.98

0.00018

CL:14310

Valine biosynthetic process, and L-serine ammonia-lyase activity

2 of 10

2.4

1.17

0.0071

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00770

Pantothenate and CoA biosynthesis

7 of 74

2.07

4.7

9.82e-12

map00280

Valine, leucine and isoleucine degradation

7 of 85

2.01

4.51

1.23e-11

map00340

Histidine metabolism

4 of 38

2.12

2.92

9.63e-07

map00310

Lysine degradation

6 of 136

1.74

2.91

2.57e-08

map00410

beta-Alanine metabolism

4 of 52

1.98

2.62

2.51e-06

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-380615

Serotonin clearance from the synaptic cleft

3 of 17

2.34

2.03

0.00014

MAP-380612

Metabolism of serotonin

3 of 17

2.34

2.03

0.00014

MAP-445355

Smooth Muscle Contraction

3 of 19

2.29

2.02

0.00014

MAP-70350

Fructose catabolism

3 of 26

2.16

1.88

0.00022

MAP-70895

Branched-chain amino acid catabolism

3 of 29

2.11

1.83

0.00026

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0032

Aminotransferase

2 of 18

2.14

0.92

0.0190

KW-0560

Oxidoreductase

4 of 308

1.21

0.71

0.0190

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF00171

Aldehyde dehydrogenase family

3 of 21

2.25

1.62

0.00086

PF01063

Amino-transferase class IV

2 of 5

2.7

1.19

0.0068

PF02668

Taurine catabolism dioxygenase TauD, TfdA family

2 of 18

2.14

0.75

0.0408

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR016163

Aldehyde dehydrogenase, C-terminal

4 of 23

2.33

2.56

1.19e-05

IPR016162

Aldehyde dehydrogenase, N-terminal

4 of 23

2.33

2.56

1.19e-05

IPR016161

Aldehyde/histidinol dehydrogenase

4 of 25

2.3

2.54

1.19e-05

IPR029510

Aldehyde dehydrogenase, glutamic acid active site

3 of 18

2.32

1.81

0.00039

IPR015590

Aldehyde dehydrogenase domain

3 of 22

2.23

1.72

0.00053

(more ...)

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