PP_3875 protein (Pseudomonas putida KT2440) - STRING interaction network

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

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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

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textmining

co-expression

protein homology

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Gene Fusion

Cooccurrence

Coexpression

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[Homology]

Score

PP_3875

Homologs of previously reported genes of unknown function. (183 aa)

Predicted Functional Partners:

PP_3873

0.775

PP_3877

0.775

PP_3874

0.773

PP_3876

0.773

PP_3870

0.684

PP_3871

0.684

PP_3869

0.682

PP_3879

0.602

PP_3881

0.594

PP_3882

0.594

Your Current Organism:

Pseudomonas putida KT2440

NCBI taxonomy Id: 160488
Other names: P. putida KT2440, Pseudomonas putida (strain KT2440), Pseudomonas putida str. KT2440

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Browse interactions in tabular form:

node1	node2	node1 annotation	node2 annotation	score
PP_3869	PP_3870	Putative Phage sheath protein; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	Phage FluMu protein gp38.	0.807
PP_3869	PP_3871	Putative Phage sheath protein; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	Homologs of previously reported genes of unknown function; Unknown function.	0.807
PP_3869	PP_3873	Putative Phage sheath protein; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	Homologs of previously reported genes of unknown function.	0.735
PP_3869	PP_3874	Putative Phage sheath protein; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	Homologs of previously reported genes of unknown function.	0.702
PP_3869	PP_3875	Putative Phage sheath protein; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	Homologs of previously reported genes of unknown function.	0.682
PP_3869	PP_3876	Putative Phage sheath protein; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	Homologs of previously reported genes of unknown function.	0.682
PP_3869	PP_3877	Putative Phage sheath protein; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	Homologs of previously reported genes of unknown function.	0.702
PP_3869	PP_3879	Putative Phage sheath protein; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	Phage portal protein, HK97 family.	0.607
PP_3869	PP_3881	Putative Phage sheath protein; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	Putative Phage terminase, large subunit; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	0.619
PP_3869	PP_3882	Putative Phage sheath protein; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	Putative Phage terminase, small subunit; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	0.642
PP_3870	PP_3869	Phage FluMu protein gp38.	Putative Phage sheath protein; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	0.807
PP_3870	PP_3871	Phage FluMu protein gp38.	Homologs of previously reported genes of unknown function; Unknown function.	0.815
PP_3870	PP_3873	Phage FluMu protein gp38.	Homologs of previously reported genes of unknown function.	0.703
PP_3870	PP_3874	Phage FluMu protein gp38.	Homologs of previously reported genes of unknown function.	0.693
PP_3870	PP_3875	Phage FluMu protein gp38.	Homologs of previously reported genes of unknown function.	0.684
PP_3870	PP_3876	Phage FluMu protein gp38.	Homologs of previously reported genes of unknown function.	0.682
PP_3870	PP_3877	Phage FluMu protein gp38.	Homologs of previously reported genes of unknown function.	0.695
PP_3870	PP_3879	Phage FluMu protein gp38.	Phage portal protein, HK97 family.	0.536
PP_3870	PP_3881	Phage FluMu protein gp38.	Putative Phage terminase, large subunit; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	0.529
PP_3870	PP_3882	Phage FluMu protein gp38.	Putative Phage terminase, small subunit; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology.	0.546

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Network Stats

number of nodes:

11

number of edges:

54

average node degree:

9.82

avg. local clustering coefficient:

0.982

expected number of edges:

92

PPI enrichment p-value:

0.665

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

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016989

Sigma factor antagonist activity

3 of 5

2.41

1.96

0.00021

GO:0015343

Siderophore transmembrane transporter activity

3 of 13

2.0

1.56

0.00085

GO:0060089

Molecular transducer activity

5 of 63

1.53

0.00019

GO:0031992

Energy transducer activity

2 of 2

2.63

1.31

0.0040

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0031224

Intrinsic component of membrane

10 of 1169

0.56

0.45

0.0012

GO:0016021

Integral component of membrane

9 of 1162

0.52

0.39

0.0059

GO:0016020

Membrane

11 of 1689

0.45

0.37

0.0012

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:36618666

(2022) Responses of the bacterial community of tobacco phyllosphere to summer climate and wildfire disease.

2 of 2

2.63

1.3

0.0042

PMID:36677491

(2023) Sphingomonas sediminicola Is an Endosymbiotic Bacterium Able to Induce the Formation of Root Nodules in Pea (Pisum sativum L.) and to Enhance Plant Biomass Production.

3 of 17

1.88

1.27

0.0030

PMID:24319357

(2013) Engineering rhizobial bioinoculants: a strategy to improve iron nutrition.

2 of 12

1.85

0.72

0.0421

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:979

Mixed, incl. Protein insertion into membrane, and Energy transducer activity

6 of 20

2.11

3.76

7.50e-09

CL:981

Mixed, incl. Energy transducer activity, and Biopolymer transport protein ExbD/TolR

5 of 12

2.25

3.51

7.98e-08

CL:995

Mixed, incl. Energy transducer activity, and Biopolymer transport protein ExbD/TolR

4 of 5

2.54

3.3

5.52e-07

CL:5671

FecR protein, and TonB-dependent siderophore receptor

4 of 10

2.23

2.76

3.49e-06

CL:5675

FecR protein, and Secretin/TonB, short N-terminal domain

3 of 5

2.41

2.2

7.24e-05

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005887

Integral component of plasma membrane

4 of 87

1.29

0.81

0.0125

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF16220

Domain of unknown function (DUF4880)

3 of 3

2.63

2.12

0.00012

PF04773

FecR protein

3 of 3

2.63

2.12

0.00012

PF03544

Gram-negative bacterial TonB protein C-terminal

2 of 3

2.46

1.08

0.0107

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR032623

FecR, N-terminal

3 of 3

2.63

1.9

0.00032

IPR012373

Fe(2+)-dicitrate sensor, transmembrane component

3 of 3

2.63

1.9

0.00032

IPR006860

FecR protein

3 of 3

2.63

1.9

0.00032

IPR006260

TonB/TolA, C-terminal

2 of 3

2.46

0.92

0.0213

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