GCA_000934755_03526 protein (Desulfonatronovibrio magnus)

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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Gene Fusion

Cooccurrence

Coexpression

Experiments

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[Homology]

Score

GCA_000934755_03526

Unannotated protein. (289 aa)

Predicted Functional Partners:

GCA_000934755_03527

0.999

GCA_000934755_03528

0.999

GCA_000934755_01757

0.890

GCA_000934755_01969

0.866

GCA_000934755_01548

0.862

GCA_000934755_01332

0.756

GCA_000934755_02018

0.750

GCA_000934755_00026

0.747

GCA_000934755_00148

0.738

GCA_000934755_01307

0.713

Your Current Organism:

Desulfonatronovibrio magnus

NCBI taxonomy Id: 698827
Other names: D. magnus, DSM 24400, Desulfonatronovibrio magnus Sorokin et al. 2011, Desulfonatronovibrio sp. AHT22, UNIQEM U844, strain AHT22

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structured XML interaction data, according to the 'PSI-MI' data standard

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... functional annotations:

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Browse interactions in tabular form:

node1	node2	node1 annotation	node2 annotation	score
GCA_000934755_00026	GCA_000934755_01757	Unannotated protein.	Unannotated protein.	0.725
GCA_000934755_00026	GCA_000934755_02018	Unannotated protein.	Unannotated protein.	0.602
GCA_000934755_00026	GCA_000934755_03526	Unannotated protein.	Unannotated protein.	0.747
GCA_000934755_00148	GCA_000934755_03526	Unannotated protein.	Unannotated protein.	0.738
GCA_000934755_01307	GCA_000934755_02018	Unannotated protein.	Unannotated protein.	0.554
GCA_000934755_01307	GCA_000934755_03526	Unannotated protein.	Unannotated protein.	0.713
GCA_000934755_01307	GCA_000934755_03528	Unannotated protein.	Unannotated protein.	0.648
GCA_000934755_01332	GCA_000934755_01969	Unannotated protein.	Unannotated protein.	0.900
GCA_000934755_01332	GCA_000934755_02018	Unannotated protein.	Unannotated protein.	0.639
GCA_000934755_01332	GCA_000934755_03526	Unannotated protein.	Unannotated protein.	0.756
GCA_000934755_01332	GCA_000934755_03528	Unannotated protein.	Unannotated protein.	0.773
GCA_000934755_01548	GCA_000934755_01757	Unannotated protein.	Unannotated protein.	0.660
GCA_000934755_01548	GCA_000934755_02018	Unannotated protein.	Unannotated protein.	0.939
GCA_000934755_01548	GCA_000934755_03526	Unannotated protein.	Unannotated protein.	0.862
GCA_000934755_01757	GCA_000934755_00026	Unannotated protein.	Unannotated protein.	0.725
GCA_000934755_01757	GCA_000934755_01548	Unannotated protein.	Unannotated protein.	0.660
GCA_000934755_01757	GCA_000934755_02018	Unannotated protein.	Unannotated protein.	0.946
GCA_000934755_01757	GCA_000934755_03526	Unannotated protein.	Unannotated protein.	0.890
GCA_000934755_01757	GCA_000934755_03527	Unannotated protein.	Unannotated protein.	0.417
GCA_000934755_01757	GCA_000934755_03528	Unannotated protein.	Unannotated protein.	0.751

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

31

average node degree:

5.64

avg. local clustering coefficient:

0.818

expected number of edges:

20

PPI enrichment p-value:

0.0113

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:0019470

4-hydroxyproline catabolic process

2 of 2

2.56

1.03

0.0133

GO:0046653

Tetrahydrofolate metabolic process

3 of 18

1.78

0.95

0.0133

GO:1901606

Alpha-amino acid catabolic process

3 of 28

1.59

0.9

0.0133

GO:0006575

Cellular modified amino acid metabolic process

5 of 102

1.25

0.87

0.0067

GO:0046416

D-amino acid metabolic process

2 of 6

2.08

0.87

0.0231

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0008115

Sarcosine oxidase activity

3 of 9

2.08

1.58

0.00085

GO:0016645

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

4 of 33

1.64

1.42

0.00074

GO:0016491

Oxidoreductase activity

9 of 515

0.8

0.69

0.00034

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:1927

GTP-binding protein TrmE/Aminomethyltransferase GcvT, domain 1, and Sarcosine oxidase, delta subunit family

4 of 24

1.78

1.79

0.00013

CL:1922

Mixed, incl. GTP-binding protein TrmE/Aminomethyltransferase GcvT, domain 1, and NADH:flavin oxidoreductase / NADH oxidase family

5 of 50

1.56

1.63

0.00011

CL:1929

FAD dependent oxidoreductase central domain, and Sarcosine oxidase activity

3 of 18

1.78

1.3

0.0022

CL:1699

Mixed, incl. Carbon metabolism, and Oxidoreductase activity, acting on the CH-NH group of donors

7 of 181

1.15

0.00011

CL:5479

Mixed, incl. Alkylhydroperoxidase AhpD core, and EF-hand, calcium binding motif

2 of 6

2.08

0.92

0.0187

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00472

D-Arginine and D-ornithine metabolism

2 of 3

2.39

1.17

0.0071

map00330

Arginine and proline metabolism

3 of 57

1.28

0.73

0.0203

map01100

Metabolic pathways

11 of 1641

0.39

0.31

0.0071

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005737

Cytoplasm

10 of 1255

0.46

0.34

0.0135

GOCC:0005622

Intracellular

11 of 1613

0.39

0.3

0.0135

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF07992

Pyridine nucleotide-disulphide oxidoreductase

4 of 16

1.96

1.99

8.26e-05

PF13510

2Fe-2S iron-sulfur cluster binding domain

3 of 7

2.19

1.71

0.00052

PF04324

BFD-like [2Fe-2S] binding domain

2 of 2

2.56

1.27

0.0047

PF08669

Glycine cleavage T-protein C-terminal barrel domain

3 of 19

1.76

1.19

0.0038

PF01571

Aminomethyltransferase folate-binding domain

3 of 18

1.78

1.19

0.0038

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR041117

SoxA, A3 domain

5 of 5

2.56

4.02

1.96e-08

IPR041854

BFD-like [2Fe-2S]-binding domain superfamily

4 of 4

2.56

3.17

1.04e-06

IPR036188

FAD/NAD(P)-binding domain superfamily

7 of 80

1.5

2.15

3.98e-07

IPR042204

2Fe-2S iron-sulfur cluster binding domain, N-terminal

3 of 5

2.34

1.91

0.00025

IPR023753

FAD/NAD(P)-binding domain

4 of 24

1.78

1.7

0.00022

(more ...)

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