SMF00060.1 protein (Pseudobacteriovorax antillogorgiicola)

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

SMF00060.1

Chemotaxis protein MotA. (259 aa)

Predicted Functional Partners:

SMF00067.1

0.997

SMF32588.1

0.991

SMF06352.1

0.988

SMF71103.1

0.987

SMF46869.1

0.983

SMF06790.1

0.981

SMF32228.1

0.981

SMF46850.1

0.980

SMF33846.1

0.979

SMF64286.1

0.974

Your Current Organism:

Pseudobacteriovorax antillogorgiicola

NCBI taxonomy Id: 1513793
Other names: Bdellovibrionales bacterium RKEM611, LMG 28452, LMG:28452, NCCB 100521, P. antillogorgiicola, Pseudobacteriovorax antillogorgiicola McCauley et al. 2015, strain RKEM611

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
SMF00060.1	SMF00067.1	SAMN06296036_10366	SAMN06296036_10367	Chemotaxis protein MotA.	Chemotaxis protein MotB.	0.997
SMF00060.1	SMF06352.1	SAMN06296036_10366	SAMN06296036_104128	Chemotaxis protein MotA.	Chemotaxis protein MotB.	0.988
SMF00060.1	SMF06790.1	SAMN06296036_10366	SAMN06296036_104164	Chemotaxis protein MotA.	Chemotaxis protein MotB.	0.981
SMF00060.1	SMF32228.1	SAMN06296036_10366	SAMN06296036_11014	Chemotaxis protein MotA.	Chemotaxis protein MotB.	0.981
SMF00060.1	SMF32588.1	SAMN06296036_10366	SAMN06296036_11039	Chemotaxis protein MotA.	Chemotaxis protein MotB.	0.991
SMF00060.1	SMF33846.1	SAMN06296036_10366	SAMN06296036_110101	Chemotaxis protein MotA.	Chemotaxis protein MotB.	0.979
SMF00060.1	SMF46850.1	SAMN06296036_10366	SAMN06296036_11483	Chemotaxis protein MotA.	Chemotaxis protein MotB.	0.980
SMF00060.1	SMF46869.1	SAMN06296036_10366	SAMN06296036_11484	Chemotaxis protein MotA.	Flagellar motor protein MotB.	0.983
SMF00060.1	SMF64286.1	SAMN06296036_10366	SAMN06296036_12223	Chemotaxis protein MotA.	OmpA family protein.	0.974
SMF00060.1	SMF71103.1	SAMN06296036_10366	SAMN06296036_12629	Chemotaxis protein MotA.	Chemotaxis protein MotB.	0.987
SMF00067.1	SMF00060.1	SAMN06296036_10367	SAMN06296036_10366	Chemotaxis protein MotB.	Chemotaxis protein MotA.	0.997
SMF00067.1	SMF06790.1	SAMN06296036_10367	SAMN06296036_104164	Chemotaxis protein MotB.	Chemotaxis protein MotB.	0.729
SMF00067.1	SMF32228.1	SAMN06296036_10367	SAMN06296036_11014	Chemotaxis protein MotB.	Chemotaxis protein MotB.	0.732
SMF00067.1	SMF46850.1	SAMN06296036_10367	SAMN06296036_11483	Chemotaxis protein MotB.	Chemotaxis protein MotB.	0.732
SMF00067.1	SMF46869.1	SAMN06296036_10367	SAMN06296036_11484	Chemotaxis protein MotB.	Flagellar motor protein MotB.	0.911
SMF06352.1	SMF00060.1	SAMN06296036_104128	SAMN06296036_10366	Chemotaxis protein MotB.	Chemotaxis protein MotA.	0.988
SMF06352.1	SMF33846.1	SAMN06296036_104128	SAMN06296036_110101	Chemotaxis protein MotB.	Chemotaxis protein MotB.	0.763
SMF06352.1	SMF46850.1	SAMN06296036_104128	SAMN06296036_11483	Chemotaxis protein MotB.	Chemotaxis protein MotB.	0.756
SMF06352.1	SMF46869.1	SAMN06296036_104128	SAMN06296036_11484	Chemotaxis protein MotB.	Flagellar motor protein MotB.	0.768
SMF06790.1	SMF00060.1	SAMN06296036_104164	SAMN06296036_10366	Chemotaxis protein MotB.	Chemotaxis protein MotA.	0.981

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

46

average node degree:

8.36

avg. local clustering coefficient:

0.788

expected number of edges:

15

PPI enrichment p-value:

7.77e-11

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:0016575

Histone deacetylation

4 of 59

2.15

2.01

0.00012

GO:0016570

Histone modification

5 of 347

1.48

1.5

0.00016

GO:0045892

Negative regulation of transcription, DNA-templated

7 of 861

1.23

1.24

0.00012

GO:0042551

Neuron maturation

2 of 19

2.34

1.06

0.0111

GO:0051172

Negative regulation of nitrogen compound metabolic process

8 of 1667

1.0

0.96

0.00012

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0000118

Histone deacetylase complex

6 of 77

2.21

4.23

1.09e-09

GO:1990391

DNA repair complex

2 of 36

2.06

0.92

0.0184

GO:0005654

Nucleoplasm

8 of 2131

0.89

0.78

0.00046

GO:0005634

Nucleus

11 of 6688

0.53

0.44

0.00057

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:9604

HDACs deacetylate histones, and Sin3 complex

9 of 52

2.56

8.63

1.01e-18

CL:9654

NuRD complex, and Methyl-CpG binding protein 2/3, C-terminal domain

7 of 23

2.8

7.8

8.60e-16

CL:9606

HDACs deacetylate histones, and Sin3 complex

8 of 47

2.55

7.76

1.08e-16

CL:9687

Histone H3-di/monomethyl-lysine-4 FAD-dependent demethylase activity, and HDACs deacetylate histones

5 of 5

3.32

6.46

1.59e-12

CL:9323

Chromatin organization, and Epigenetic regulation of gene expression

10 of 200

2.02

6.01

4.69e-17

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-3214815

HDACs deacetylate histones

9 of 59

2.5

8.48

9.54e-19

MAP-4839726

Chromatin organization

9 of 303

1.79

4.13

6.52e-13

MAP-3247509

Chromatin modifying enzymes

9 of 303

1.79

4.13

6.52e-13

MAP-983231

Factors involved in megakaryocyte development and platelet production

7 of 217

1.83

3.48

1.05e-09

MAP-109582

Hemostasis

7 of 902

1.21

1.36

1.46e-05

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0000118

Histone deacetylase complex

3 of 74

1.93

1.2

0.0045

GOCC:1990391

DNA repair complex

2 of 33

2.1

0.76

0.0382

GOCC:0005634

Nucleus

9 of 3523

0.72

0.55

0.0031

GOCC:0043229

Intracellular organelle

11 of 9083

0.4

0.3

0.0200

GOCC:0043227

Membrane-bounded organelle

10 of 7423

0.45

0.3

0.0382

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0539

Nucleus

7 of 1189

1.09

1.08

9.63e-05

KW-0156

Chromatin regulator

2 of 29

2.16

0.96

0.0162

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR000949

ELM2 domain

3 of 15

2.62

1.81

0.00048

IPR017884

SANT domain

3 of 26

2.38

1.59

0.0011

IPR001005

SANT/Myb domain

3 of 46

2.13

1.29

0.0036

IPR009057

Homeobox-like domain superfamily

4 of 366

1.36

0.67

0.0361

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM01189

The ELM2 (Egl-27 and MTA1 homology 2) domain is a small domain of unknown function. It is found in the MTA1 protein that is part of the NuRD complex PUBMED:10226007. The domain is usually found to the N terminus of a myb-like DNA binding domain SANT ...

3 of 14

2.65

2.36

4.36e-05

SM00717

SANT SWI3, ADA2, N-CoR and TFIIIB DNA-binding domains

3 of 50

2.1

1.61

0.00074

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (30%) [HD]

Permalink

Network

Neighborhood

Experiments

Cooccurrence

Databases

Coexpression

Textmining

Fusion

© STRING Consortium 2025

Credits

Access

Info

About