SDP30260.1 protein (Desulforhopalus singaporensis)

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.

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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

SDP30260.1

Hypothetical protein. (432 aa)

Predicted Functional Partners:

SDP30239.1

0.773

SDO72293.1

0.747

SDP22919.1

0.615

SDP44083.1

0.529

SDO37386.1

0.497

SDP19276.1

0.484

SDP61307.1

0.468

SDP30283.1

0.447

SDP30304.1

0.447

SDP30221.1

0.446

Your Current Organism:

Desulforhopalus singaporensis

NCBI taxonomy Id: 91360
Other names: D. singaporensis, DSM 12130, Desulforhopalus singaporensis Lie et al. 2000, strain Spore T1

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SDO37386.1	SDO72293.1	SAMN05660330_00106	SAMN05660330_00876	Hypothetical protein.	Transcriptional regulator, TetR family.	0.615
SDO37386.1	SDP19276.1	SAMN05660330_00106	SAMN05660330_02065	Hypothetical protein.	Type IV pilus assembly protein PilY1.	0.743
SDO37386.1	SDP30260.1	SAMN05660330_00106	SAMN05660330_02357	Hypothetical protein.	Hypothetical protein.	0.497
SDO37386.1	SDP44083.1	SAMN05660330_00106	SAMN05660330_02778	Hypothetical protein.	Papain family cysteine protease.	0.450
SDO72293.1	SDO37386.1	SAMN05660330_00876	SAMN05660330_00106	Transcriptional regulator, TetR family.	Hypothetical protein.	0.615
SDO72293.1	SDP19276.1	SAMN05660330_00876	SAMN05660330_02065	Transcriptional regulator, TetR family.	Type IV pilus assembly protein PilY1.	0.543
SDO72293.1	SDP22919.1	SAMN05660330_00876	SAMN05660330_02157	Transcriptional regulator, TetR family.	Hypothetical protein.	0.567
SDO72293.1	SDP30260.1	SAMN05660330_00876	SAMN05660330_02357	Transcriptional regulator, TetR family.	Hypothetical protein.	0.747
SDP19276.1	SDO37386.1	SAMN05660330_02065	SAMN05660330_00106	Type IV pilus assembly protein PilY1.	Hypothetical protein.	0.743
SDP19276.1	SDO72293.1	SAMN05660330_02065	SAMN05660330_00876	Type IV pilus assembly protein PilY1.	Transcriptional regulator, TetR family.	0.543
SDP19276.1	SDP30260.1	SAMN05660330_02065	SAMN05660330_02357	Type IV pilus assembly protein PilY1.	Hypothetical protein.	0.484
SDP22919.1	SDO72293.1	SAMN05660330_02157	SAMN05660330_00876	Hypothetical protein.	Transcriptional regulator, TetR family.	0.567
SDP22919.1	SDP30260.1	SAMN05660330_02157	SAMN05660330_02357	Hypothetical protein.	Hypothetical protein.	0.615
SDP22919.1	SDP44083.1	SAMN05660330_02157	SAMN05660330_02778	Hypothetical protein.	Papain family cysteine protease.	0.612
SDP30221.1	SDP30239.1	SAMN05660330_02355	SAMN05660330_02356	Hypothetical protein.	Predicted Na+-dependent transporter.	0.446
SDP30221.1	SDP30260.1	SAMN05660330_02355	SAMN05660330_02357	Hypothetical protein.	Hypothetical protein.	0.446
SDP30239.1	SDP30221.1	SAMN05660330_02356	SAMN05660330_02355	Predicted Na+-dependent transporter.	Hypothetical protein.	0.446
SDP30239.1	SDP30260.1	SAMN05660330_02356	SAMN05660330_02357	Predicted Na+-dependent transporter.	Hypothetical protein.	0.773
SDP30239.1	SDP30283.1	SAMN05660330_02356	SAMN05660330_02358	Predicted Na+-dependent transporter.	Aldehyde oxidoreductase.	0.447
SDP30239.1	SDP30304.1	SAMN05660330_02356	SAMN05660330_02359	Predicted Na+-dependent transporter.	tRNA 2-thiouridine synthesizing protein E.	0.447

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

30

average node degree:

5.45

avg. local clustering coefficient:

0.775

expected number of edges:

22

PPI enrichment p-value:

0.0744

your network does not have 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:0006412

Translation

8 of 77

1.12

1.28

3.82e-06

GO:0010467

Gene expression

11 of 141

0.99

1.21

1.44e-08

GO:0009059

Macromolecule biosynthetic process

11 of 152

0.96

1.14

1.59e-08

GO:0006351

Transcription, DNA-templated

3 of 11

1.54

1.06

0.0047

GO:0044271

Cellular nitrogen compound biosynthetic process

11 of 196

0.85

0.91

1.58e-07

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0019843

rRNA binding

7 of 32

1.44

2.02

4.46e-07

GO:0003735

Structural constituent of ribosome

7 of 43

1.31

1.69

1.41e-06

GO:0003899

DNA-directed 5-3 RNA polymerase activity

3 of 4

1.98

1.62

0.00060

GO:0003723

RNA binding

8 of 64

1.2

1.51

6.38e-07

GO:0003676

Nucleic acid binding

11 of 169

0.91

1.04

4.80e-08

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005840

Ribosome

8 of 46

1.34

1.96

3.85e-08

GO:0000428

DNA-directed RNA polymerase complex

3 of 5

1.88

1.71

0.00029

GO:0015935

Small ribosomal subunit

2 of 6

1.62

0.95

0.0110

GO:0032991

Protein-containing complex

5 of 68

0.97

0.81

0.0011

GO:0005622

Intracellular anatomical structure

9 of 515

0.34

0.27

0.0213

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:75

rRNA binding, and RNA polymerase

11 of 38

1.56

3.46

9.56e-15

CL:77

rRNA binding

8 of 33

1.48

2.55

1.01e-09

CL:80

rRNA binding

6 of 18

1.62

2.52

1.05e-07

CL:81

Small ribosomal subunit, and rRNA-binding

5 of 13

1.69

2.34

1.40e-06

CL:82

Small ribosomal subunit, and K homology RNA-binding domain

4 of 8

1.8

2.15

1.56e-05

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03010

Ribosome

8 of 47

1.33

1.93

4.50e-08

map03020

RNA polymerase

3 of 3

2.1

1.79

0.00031

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-9635486

Infection with Mycobacterium tuberculosis

3 of 22

1.23

0.8

0.0107

MAP-5663205

Infectious disease

3 of 25

1.18

0.77

0.0107

MAP-1643685

Disease

3 of 26

1.16

0.76

0.0107

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0022627

Cytosolic small ribosomal subunit

3 of 6

1.8

1.45

0.00099

GOCC:0005840

Ribosome

5 of 31

1.31

1.29

0.00020

GOCC:0000428

DNA-directed RNA polymerase complex

3 of 17

1.35

0.94

0.0058

GOCC:0043229

Intracellular organelle

8 of 133

0.88

0.8

0.00019

GOCC:0032991

Protein-containing complex

6 of 174

0.64

0.43

0.0132

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0699

rRNA-binding

7 of 26

1.53

2.38

5.69e-08

KW-0689

Ribosomal protein

8 of 45

1.35

1.96

5.69e-08

KW-0240

DNA-directed RNA polymerase

3 of 4

1.98

1.71

0.00037

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