DP2041 protein (Desulfotalea psychrophila) - STRING interaction network

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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colored nodes:
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

Databases

Textmining

[Homology]

Score

DP2041

Related to fimbrial protein [Precursor]. (77 aa)

Predicted Functional Partners:

DP0110

0.671

DP0108

0.545

DP1462

0.520

DP0109

0.514

DP0112

0.502

DP2042

0.412

Your Current Organism:

Desulfotalea psychrophila

NCBI taxonomy Id: 177439
Other names: D. psychrophila LSv54, Desulfotalea psychrophila LSv54

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Browse interactions in tabular form:

node1	node2	node1 annotation	node2 annotation	score
DP0108	DP0109	Related to fimbrial assembly protein PilM.	Related to fimbrial assembly protein PilN.	0.997
DP0108	DP0110	Related to fimbrial assembly protein PilM.	Related to fimbrial assembly protein PilO.	0.980
DP0108	DP0112	Related to fimbrial assembly protein PilM.	Related to fimbrial assembly protein PilQ [Precursor].	0.977
DP0108	DP1462	Related to fimbrial assembly protein PilM.	Related to PilY1 protein.	0.412
DP0108	DP2041	Related to fimbrial assembly protein PilM.	Related to fimbrial protein [Precursor].	0.545
DP0109	DP0108	Related to fimbrial assembly protein PilN.	Related to fimbrial assembly protein PilM.	0.997
DP0109	DP0110	Related to fimbrial assembly protein PilN.	Related to fimbrial assembly protein PilO.	0.996
DP0109	DP0112	Related to fimbrial assembly protein PilN.	Related to fimbrial assembly protein PilQ [Precursor].	0.995
DP0109	DP1462	Related to fimbrial assembly protein PilN.	Related to PilY1 protein.	0.608
DP0109	DP2041	Related to fimbrial assembly protein PilN.	Related to fimbrial protein [Precursor].	0.514
DP0110	DP0108	Related to fimbrial assembly protein PilO.	Related to fimbrial assembly protein PilM.	0.980
DP0110	DP0109	Related to fimbrial assembly protein PilO.	Related to fimbrial assembly protein PilN.	0.996
DP0110	DP0112	Related to fimbrial assembly protein PilO.	Related to fimbrial assembly protein PilQ [Precursor].	0.984
DP0110	DP1462	Related to fimbrial assembly protein PilO.	Related to PilY1 protein.	0.665
DP0110	DP2041	Related to fimbrial assembly protein PilO.	Related to fimbrial protein [Precursor].	0.671
DP0112	DP0108	Related to fimbrial assembly protein PilQ [Precursor].	Related to fimbrial assembly protein PilM.	0.977
DP0112	DP0109	Related to fimbrial assembly protein PilQ [Precursor].	Related to fimbrial assembly protein PilN.	0.995
DP0112	DP0110	Related to fimbrial assembly protein PilQ [Precursor].	Related to fimbrial assembly protein PilO.	0.984
DP0112	DP2041	Related to fimbrial assembly protein PilQ [Precursor].	Related to fimbrial protein [Precursor].	0.502
DP1462	DP0108	Related to PilY1 protein.	Related to fimbrial assembly protein PilM.	0.412

page 1 of 2

Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

28

PPI enrichment p-value:

1.32e-06

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:0006351

Transcription, DNA-templated

7 of 25

2.0

3.95

5.53e-10

GO:0006352

DNA-templated transcription, initiation

3 of 15

1.85

1.41

0.0014

GO:0019438

Aromatic compound biosynthetic process

8 of 270

1.02

1.06

1.90e-05

GO:0018130

Heterocycle biosynthetic process

8 of 294

0.98

0.99

3.13e-05

GO:1901362

Organic cyclic compound biosynthetic process

8 of 305

0.97

0.96

3.63e-05

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003899

DNA-directed 5-3 RNA polymerase activity

4 of 6

2.37

2.73

5.59e-06

GO:0016987

Sigma factor activity

3 of 15

1.85

1.33

0.0021

GO:0003677

DNA binding

7 of 307

0.91

0.75

0.0010

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0000428

DNA-directed RNA polymerase complex

4 of 9

2.2

2.71

3.94e-06

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:37075846

(2023) Transcription regulation by CarD in mycobacteria is guided by basal promoter kinetics.

4 of 6

2.37

2.55

1.31e-05

PMID:38741736

(2024) Function of the RNA-targeting class 2 type VI CRISPR Cas system of Rhodobacter capsulatus.

3 of 3

2.55

2.0

0.00020

PMID:30200857

(2018) Transcriptional Responses to ppGpp and DksA.

4 of 14

2.0

1.99

9.46e-05

PMID:34254822

(2021) Promoter Architecture Differences among Alphaproteobacteria and Other Bacterial Taxa.

3 of 5

2.33

1.84

0.00034

PMID:24516534

(2014) Transcriptional profiling of nitrogen fixation and the role of NifA in the diazotrophic endophyte Azoarcus sp. strain BH72.

4 of 23

1.79

1.67

0.00027

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:215

RNA polymerase, and Transcription termination

3 of 5

2.33

1.63

0.00087

CL:92

Ribosome, and RNA polymerase

4 of 67

1.32

0.8

0.0141

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

rsp03020

RNA polymerase

4 of 4

2.55

3.46

2.66e-07

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0000428

DNA-directed RNA polymerase complex

7 of 66

1.57

2.47

6.05e-08

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0240

DNA-directed RNA polymerase

4 of 9

2.2

2.63

5.88e-06

KW-0731

Sigma factor

3 of 15

1.85

1.51

0.00081

KW-0804

Transcription

7 of 150

1.22

1.43

5.88e-06

KW-0548

Nucleotidyltransferase

4 of 45

1.5

1.36

0.00055

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF04545

Sigma-70, region 4

3 of 7

2.18

1.52

0.0013

PF04542

Sigma-70 region 2

3 of 11

1.98

1.39

0.0019

PF00140

Sigma-70 factor, region 1.2

2 of 2

2.55

1.12

0.0091

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR000943

RNA polymerase sigma-70

3 of 4

2.42

1.62

0.00096

IPR007630

RNA polymerase sigma-70 region 4

3 of 7

2.18

1.47

0.0016

IPR014284

RNA polymerase sigma-70 like domain

3 of 11

1.98

1.28

0.0033

IPR013325

RNA polymerase sigma factor, region 2

3 of 11

1.98

1.28

0.0033

IPR007627

RNA polymerase sigma-70 region 2

3 of 11

1.98

1.28

0.0033

(more ...)

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