Bxe_A3433 protein (Paraburkholderia xenovorans)

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.

Node Color

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:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

Bxe_A3433

Putative dehydrogenase. (433 aa)

Predicted Functional Partners:

Bxe_A3431

0.995

Bxe_A3432

0.983

Bxe_A0740

0.973

Bxe_B0198

0.942

Bxe_A3430

0.895

Bxe_B0199

0.825

Bxe_A1894

0.551

Bxe_A0089

0.539

Bxe_B2844

0.539

Bxe_B0197

0.527

Your Current Organism:

Paraburkholderia xenovorans

NCBI taxonomy Id: 266265
Other names: Burkholderia cepacia LB400, Burkholderia fungorum LB400, Burkholderia sp. LB400, Burkholderia xenovorans LB400, P. xenovorans LB400, Paraburkholderia xenovorans LB400, Pseudomonas LB400, Pseudomonas sp. (strain LB400), Pseudomonas sp. LB400

Send network to Cytoscape

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

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

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

a tab-delimited file containing all known functional terms of protiens in your network

Browse interactions in tabular form:

node1	node2	node1 annotation	node2 annotation	score
Bxe_A0089	Bxe_A3433	Sodium/calcium antiporter.	Putative dehydrogenase.	0.539
Bxe_A0740	Bxe_A3432	Cyclopropane-fatty-acyl-phospholipid synthase.	Conserved hypothetical protein.	0.953
Bxe_A0740	Bxe_A3433	Cyclopropane-fatty-acyl-phospholipid synthase.	Putative dehydrogenase.	0.973
Bxe_A0740	Bxe_B0198	Cyclopropane-fatty-acyl-phospholipid synthase.	Putative membrane protein.	0.511
Bxe_A1894	Bxe_A3431	Putative outer membrane lipoprotein, lipocalin Blc like protein; Involved in the storage or transport of lipids necessary for membrane maintenance under stressful conditions. Displays a binding preference for lysophospholipids.	Cyclopropane-fatty-acyl-phospholipid synthase.	0.429
Bxe_A1894	Bxe_A3432	Putative outer membrane lipoprotein, lipocalin Blc like protein; Involved in the storage or transport of lipids necessary for membrane maintenance under stressful conditions. Displays a binding preference for lysophospholipids.	Conserved hypothetical protein.	0.587
Bxe_A1894	Bxe_A3433	Putative outer membrane lipoprotein, lipocalin Blc like protein; Involved in the storage or transport of lipids necessary for membrane maintenance under stressful conditions. Displays a binding preference for lysophospholipids.	Putative dehydrogenase.	0.551
Bxe_A1894	Bxe_B0198	Putative outer membrane lipoprotein, lipocalin Blc like protein; Involved in the storage or transport of lipids necessary for membrane maintenance under stressful conditions. Displays a binding preference for lysophospholipids.	Putative membrane protein.	0.690
Bxe_A1894	Bxe_B0199	Putative outer membrane lipoprotein, lipocalin Blc like protein; Involved in the storage or transport of lipids necessary for membrane maintenance under stressful conditions. Displays a binding preference for lysophospholipids.	Putative cyclopropane-fatty-acyl- phospholipid synthase.	0.696
Bxe_A3430	Bxe_A3431	Hypothetical protein.	Cyclopropane-fatty-acyl-phospholipid synthase.	0.861
Bxe_A3430	Bxe_A3432	Hypothetical protein.	Conserved hypothetical protein.	0.904
Bxe_A3430	Bxe_A3433	Hypothetical protein.	Putative dehydrogenase.	0.895
Bxe_A3431	Bxe_A1894	Cyclopropane-fatty-acyl-phospholipid synthase.	Putative outer membrane lipoprotein, lipocalin Blc like protein; Involved in the storage or transport of lipids necessary for membrane maintenance under stressful conditions. Displays a binding preference for lysophospholipids.	0.429
Bxe_A3431	Bxe_A3430	Cyclopropane-fatty-acyl-phospholipid synthase.	Hypothetical protein.	0.861
Bxe_A3431	Bxe_A3432	Cyclopropane-fatty-acyl-phospholipid synthase.	Conserved hypothetical protein.	0.995
Bxe_A3431	Bxe_A3433	Cyclopropane-fatty-acyl-phospholipid synthase.	Putative dehydrogenase.	0.995
Bxe_A3431	Bxe_B0197	Cyclopropane-fatty-acyl-phospholipid synthase.	Putative outer membrane lipoprotein; Involved in the storage or transport of lipids necessary for membrane maintenance under stressful conditions. Displays a binding preference for lysophospholipids.	0.421
Bxe_A3431	Bxe_B0198	Cyclopropane-fatty-acyl-phospholipid synthase.	Putative membrane protein.	0.880
Bxe_A3431	Bxe_B2844	Cyclopropane-fatty-acyl-phospholipid synthase.	Deoxyribodipyrimidine photo-lyase type I; Belongs to the DNA photolyase family.	0.426
Bxe_A3432	Bxe_A0740	Conserved hypothetical protein.	Cyclopropane-fatty-acyl-phospholipid synthase.	0.953

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

13

PPI enrichment p-value:

< 1.0e-16

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:0043928

Exonucleolytic catabolism of deadenylated mRNA

3 of 29

2.72

2.1

0.00014

GO:0010497

Plasmodesmata-mediated intercellular transport

2 of 30

2.53

1.33

0.0037

GO:2000280

Regulation of root development

2 of 92

2.04

0.9

0.0200

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0004535

poly(A)-specific ribonuclease activity

3 of 26

2.77

2.33

5.39e-05

GO:0005351

Carbohydrate:proton symporter activity

3 of 40

2.58

2.18

9.09e-05

GO:0030145

Manganese ion binding

2 of 136

1.87

0.7

0.0475

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030015

CCR4-NOT core complex

3 of 34

2.65

2.38

3.98e-05

GO:0000932

P-body

3 of 145

2.02

1.55

0.00089

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:26059100

(2015) Comparative transcriptomics analysis reveals difference of key gene expression between banana and plantain in response to cold stress.

7 of 115

2.49

5.8

2.07e-12

PMID:36457753

(2022) Chromosome-level genome assembly of Dongxiang wild rice (Oryza rufipogon) provides insights into resistance to disease and freezing.

3 of 11

3.14

2.48

3.28e-05

PMID:27379110

(2016) Transcriptome- Assisted Label-Free Quantitative Proteomics Analysis Reveals Novel Insights into Piper nigrum-Phytophthora capsici Phytopathosystem.

3 of 15

3.01

2.37

4.90e-05

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:55842

Mixed, incl. Serine carboxypeptidases, histidine active site, and Gibberellin 20-oxidase activity

5 of 32

2.9

5.04

4.21e-10

CL:55889

Plasmodesmata-mediated intercellular transport, and Cyclophilin-type peptidyl-prolyl cis-trans isomerase

3 of 5

3.48

3.45

6.04e-07

CL:49891

Mixed, incl. Polyol transporter 1-6, and Alternative mRNA splicing, via spliceosome

3 of 10

3.18

3.08

2.57e-06

CL:6282

CCR4-NOT complex

3 of 47

2.51

2.09

0.00013

CL:6285

CCR4-NOT complex

2 of 40

2.4

0.98

0.0160

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

gmx03018

RNA degradation

3 of 179

1.93

1.56

0.00073

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-6804115

TP53 regulates transcription of additional cell cycle genes whose exact role in the p53 pathway remain uncertain

3 of 47

2.51

2.15

9.72e-05

MAP-6791312

TP53 Regulates Transcription of Cell Cycle Genes

3 of 53

2.46

2.14

9.72e-05

MAP-429914

Deadenylation-dependent mRNA decay

3 of 185

1.92

1.38

0.0018

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0030015

CCR4-NOT core complex

3 of 33

2.66

2.27

6.52e-05

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF04857

CAF1 family ribonuclease

3 of 14

3.04

2.71

1.17e-05

PF00083

Sugar (and other) transporter

3 of 111

2.14

1.4

0.0021

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR039637

CCR4-NOT transcription complex subunit 7/8/Pop2

3 of 12

3.1

2.56

2.29e-05

IPR006941

Ribonuclease CAF1

3 of 15

3.01

2.55

2.29e-05

IPR045262

Sugar transport protein STP/Polyol transporter PLT, plant

3 of 47

2.51

1.88

0.00033

IPR044776

Polyol transporter 1-6

2 of 3

3.53

1.73

0.00078

IPR003663

Sugar/inositol transporter

3 of 111

2.14

1.38

0.0024

(more ...)

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (22%) [HD]

Permalink

Network

Neighborhood

Textmining

Fusion

Experiments

Cooccurrence

Databases

Coexpression

© STRING Consortium 2024

Credits

Access

Info

About