lptB protein (Corallococcus coralloides) - 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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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

Others

textmining

co-expression

protein homology

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

lptB

ABC transporter ATP-binding protein. (246 aa)

Predicted Functional Partners:

AFE06222.1

0.994

AFE06221.1

0.986

AFE03826.1

0.977

AFE03827.1

0.962

braE

0.899

htrB

0.883

yhiH3

0.864

lpxA

0.826

lpxD

0.778

tolQ1

0.777

Your Current Organism:

Corallococcus coralloides

NCBI taxonomy Id: 1144275
Other names: C. coralloides DSM 2259, Corallococcus coralloides ATCC 25202, Corallococcus coralloides DSM 2259, Corallococcus coralloides NBRC 100086, Corallococcus coralloides str. DSM 2259, Corallococcus coralloides strain DSM 2259

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
AFE03826.1	AFE03827.1	COCOR_00995	COCOR_00996	Hypothetical protein.	Hypothetical protein.	0.782
AFE03826.1	htrB	COCOR_00995	COCOR_00994	Hypothetical protein.	Lipid A biosynthesis acyltransferase.	0.748
AFE03826.1	lptB	COCOR_00995	COCOR_00997	Hypothetical protein.	ABC transporter ATP-binding protein.	0.977
AFE03827.1	AFE03826.1	COCOR_00996	COCOR_00995	Hypothetical protein.	Hypothetical protein.	0.782
AFE03827.1	htrB	COCOR_00996	COCOR_00994	Hypothetical protein.	Lipid A biosynthesis acyltransferase.	0.805
AFE03827.1	lptB	COCOR_00996	COCOR_00997	Hypothetical protein.	ABC transporter ATP-binding protein.	0.962
AFE06221.1	AFE06222.1	COCOR_05154	COCOR_05155	Hypothetical protein.	Hypothetical protein.	0.999
AFE06221.1	lptB	COCOR_05154	COCOR_00997	Hypothetical protein.	ABC transporter ATP-binding protein.	0.986
AFE06222.1	AFE06221.1	COCOR_05155	COCOR_05154	Hypothetical protein.	Hypothetical protein.	0.999
AFE06222.1	htrB	COCOR_05155	COCOR_00994	Hypothetical protein.	Lipid A biosynthesis acyltransferase.	0.483
AFE06222.1	lptB	COCOR_05155	COCOR_00997	Hypothetical protein.	ABC transporter ATP-binding protein.	0.994
AFE06222.1	lpxA	COCOR_05155	COCOR_02671	Hypothetical protein.	UDP-N-acetylglucosamine acyltransferase; Involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell.	0.514
AFE06222.1	lpxD	COCOR_05155	COCOR_02669	Hypothetical protein.	UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Catalyzes the N-acylation of UDP-3-O-acylglucosamine using 3- hydroxyacyl-ACP as the acyl donor. Is involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell. Belongs to the transferase hexapeptide repeat family. LpxD subfamily.	0.585
AFE06222.1	tolQ1	COCOR_05155	COCOR_04866	Hypothetical protein.	MotA/TolQ/ExbB proton channel family protein.	0.646
braE	lptB	COCOR_07255	COCOR_00997	Putative branched chain amino acid ABC transporter permease; Belongs to the binding-protein-dependent transport system permease family.	ABC transporter ATP-binding protein.	0.899
htrB	AFE03826.1	COCOR_00994	COCOR_00995	Lipid A biosynthesis acyltransferase.	Hypothetical protein.	0.748
htrB	AFE03827.1	COCOR_00994	COCOR_00996	Lipid A biosynthesis acyltransferase.	Hypothetical protein.	0.805
htrB	AFE06222.1	COCOR_00994	COCOR_05155	Lipid A biosynthesis acyltransferase.	Hypothetical protein.	0.483
htrB	lptB	COCOR_00994	COCOR_00997	Lipid A biosynthesis acyltransferase.	ABC transporter ATP-binding protein.	0.883
htrB	lpxA	COCOR_00994	COCOR_02671	Lipid A biosynthesis acyltransferase.	UDP-N-acetylglucosamine acyltransferase; Involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell.	0.817

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Network Stats

number of nodes:

11

number of edges:

53

average node degree:

9.64

avg. local clustering coefficient:

0.962

expected number of edges:

10

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:0090087

Regulation of peptide transport

2 of 3

2.88

1.27

0.0051

GO:0050714

Positive regulation of protein secretion

2 of 2

3.06

1.27

0.0051

GO:0046952

Ketone body catabolic process

2 of 2

3.06

1.27

0.0051

GO:0019521

D-gluconate metabolic process

2 of 4

2.76

1.26

0.0051

GO:0032787

Monocarboxylic acid metabolic process

6 of 317

1.33

1.25

0.00041

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030729

acetoacetate-CoA ligase activity

2 of 2

3.06

1.2

0.0068

GO:0008260

3-oxoacid CoA-transferase activity

2 of 2

3.06

1.2

0.0068

GO:0004616

Phosphogluconate dehydrogenase (decarboxylating) activity

2 of 2

3.06

1.2

0.0068

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:12431

Valine, leucine and isoleucine degradation, and Beta oxidation of butanoyl-CoA to acetyl-CoA

4 of 32

2.15

2.24

3.76e-05

CL:14589

Pentose phosphate pathway, and Glycolytic process

4 of 44

2.02

2.15

4.12e-05

CL:14667

D-gluconate metabolic process, and Glucosamine/galactosamine-6-phosphate isomerase

2 of 5

2.66

1.5

0.0018

CL:12482

Coenzyme A transferase, and Thiolase, acyl-enzyme intermediate active site

2 of 5

2.66

1.5

0.0018

CL:14641

Pentose phosphate pathway

2 of 13

2.24

1.13

0.0078

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00650

Butanoate metabolism

4 of 35

2.12

2.65

3.99e-06

map00030

Pentose phosphate pathway

4 of 39

2.07

2.62

3.99e-06

map00280

Valine, leucine and isoleucine degradation

4 of 87

1.72

1.93

3.87e-05

map00072

Synthesis and degradation of ketone bodies

2 of 11

2.32

1.52

0.0014

map01200

Carbon metabolism

4 of 207

1.34

1.2

0.00072

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-74182

Ketone body metabolism

4 of 8

2.76

3.67

1.48e-07

MAP-77108

Utilization of Ketone Bodies

2 of 3

2.88

1.37

0.0033

MAP-77111

Synthesis of Ketone Bodies

2 of 6

2.58

1.21

0.0061

MAP-71336

Pentose phosphate pathway

2 of 22

2.02

0.72

0.0450

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0020015

Glycosome

2 of 2

3.06

1.32

0.0042

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0570

Pentose shunt

2 of 4

2.76

1.43

0.0025

KW-0521

NADP

2 of 29

1.9

0.75

0.0385

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF02502

Ribose/Galactose Isomerase

2 of 2

3.06

1.31

0.0044

PF03446

NAD binding domain of 6-phosphogluconate dehydrogenase

2 of 6

2.58

1.09

0.0103

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR036569

Sugar-phosphate isomerase, RpiB/LacA/LacB superfamily

2 of 2

3.06

1.05

0.0126

IPR014388

3-oxoacid CoA-transferase

2 of 2

3.06

1.05

0.0126

IPR012792

3-oxoacid CoA-transferase, subunit A

2 of 2

3.06

1.05

0.0126

IPR012791

3-oxoacid CoA-transferase, subunit B

2 of 2

3.06

1.05

0.0126

IPR011860

Ribose 5-phosphate isomerase B, Actinobacteria-type

2 of 2

3.06

1.05

0.0126

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM01350

6-phosphogluconate dehydrogenase, C-terminal domain

2 of 2

3.06

1.58

0.0014

SM00882

Coenzyme A transferase

2 of 2

3.06

1.58

0.0014

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