AKP66089.1 protein (Lactobacillus koreensis)

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

AKP66089.1

PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (84 aa)

Predicted Functional Partners:

AKP64336.1

0.725

AKP65761.1

0.715

AKP64095.1

0.550

AKP64387.1

0.550

AKP63923.1

0.549

AKP63961.1

0.549

AKP64437.1

0.549

AKP65764.1

0.508

Your Current Organism:

Lactobacillus koreensis

NCBI taxonomy Id: 637971
Other names: DSM 27983, JCM 16448, KCTC 13530, L. koreensis, Lactobacillus koreensis Bui et al. 2011, strain DCY50

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 accession	node2 accession	node1 annotation	node2 annotation	score
AKP63923.1	AKP66089.1	ABN16_02220	ABN16_12610	PemK family transcriptional regulator; Toxic component of a type II toxin-antitoxin (TA) system.	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.549
AKP63961.1	AKP64387.1	ABN16_02420	ABN16_04825	MazF family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Cell division protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.439
AKP63961.1	AKP66089.1	ABN16_02420	ABN16_12610	MazF family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.549
AKP64095.1	AKP66089.1	ABN16_03160	ABN16_12610	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.550
AKP64336.1	AKP64437.1	ABN16_04555	ABN16_05115	Cell division protein FtsN; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.714
AKP64336.1	AKP66089.1	ABN16_04555	ABN16_12610	Cell division protein FtsN; Derived by automated computational analysis using gene prediction method: Protein Homology.	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.725
AKP64387.1	AKP63961.1	ABN16_04825	ABN16_02420	Cell division protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	MazF family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.439
AKP64387.1	AKP64437.1	ABN16_04825	ABN16_05115	Cell division protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.526
AKP64387.1	AKP66089.1	ABN16_04825	ABN16_12610	Cell division protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.550
AKP64437.1	AKP64336.1	ABN16_05115	ABN16_04555	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Cell division protein FtsN; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.714
AKP64437.1	AKP64387.1	ABN16_05115	ABN16_04825	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Cell division protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.526
AKP64437.1	AKP65761.1	ABN16_05115	ABN16_12595	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	PemK family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.713
AKP64437.1	AKP66089.1	ABN16_05115	ABN16_12610	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.549
AKP65761.1	AKP64437.1	ABN16_12595	ABN16_05115	PemK family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.713
AKP65761.1	AKP66089.1	ABN16_12595	ABN16_12610	PemK family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.715
AKP65764.1	AKP66089.1	ABN16_12615	ABN16_12610	XRE family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.508
AKP66089.1	AKP63923.1	ABN16_12610	ABN16_02220	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	PemK family transcriptional regulator; Toxic component of a type II toxin-antitoxin (TA) system.	0.549
AKP66089.1	AKP63961.1	ABN16_12610	ABN16_02420	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	MazF family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.549
AKP66089.1	AKP64095.1	ABN16_12610	ABN16_03160	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.550
AKP66089.1	AKP64336.1	ABN16_12610	ABN16_04555	PbsX family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Cell division protein FtsN; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.725

page 1 of 2

Network Stats

number of nodes:

5

number of edges:

9

average node degree:

3.6

avg. local clustering coefficient:

0.9

expected number of edges:

11

PPI enrichment p-value:

0.465

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:2001295

malonyl-CoA biosynthetic process

2 of 3

2.29

1.15

0.0073

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003700

DNA-binding transcription factor activity

7 of 89

1.36

1.73

3.18e-06

GO:0016743

Carboxyl- or carbamoyltransferase activity

2 of 4

2.17

0.79

0.0348

GO:0003989

acetyl-CoA carboxylase activity

2 of 4

2.17

0.79

0.0348

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0009317

acetyl-CoA carboxylase complex

2 of 3

2.29

1.3

0.0038

GO:0005737

Cytoplasm

11 of 1119

0.46

0.38

0.00095

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:2244

Mixed, incl. The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain that has a similar fold to PUBMED:12757941. It is believed to modulate activity of bacterial transcription factors in response to binding small molecules., and Peroxiredoxin activity

4 of 6

2.29

2.56

1.08e-05

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map01210

2-Oxocarboxylic acid metabolism

4 of 22

1.73

1.76

0.00012

map00300

Lysine biosynthesis

4 of 24

1.69

1.73

0.00012

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0009317

acetyl-CoA carboxylase complex

2 of 4

2.17

0.75

0.0419

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0805

Transcription regulation

7 of 113

1.26

1.52

4.72e-06

KW-0238

DNA-binding

7 of 190

1.04

4.98e-05

KW-0275

Fatty acid biosynthesis

2 of 11

1.73

0.71

0.0408

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF01039

Carboxyl transferase domain

2 of 2

2.47

0.83

0.0302

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00345

Helix_turn_helix gluconate operon transcriptional repressor

7 of 12

2.23

5.3

2.51e-12

SM00866

The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain that has a similar fold to PUBMED:12757941. It is believed to modulate activity of bacterial transcription factors in response to binding small molecules.

4 of 5

2.37

3.23

5.11e-07

SM00895

This entry represents the C-terminal ligand binding domain of many members of the GntR family. This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding ...

2 of 3

2.29

1.29

0.0040

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (18%) [HD]

Permalink

Network

Neighborhood

Experiments

Cooccurrence

Textmining

Coexpression

Databases

Fusion

© STRING Consortium 2024

Credits

Access

Info

About