lacI protein (Caldithrix abyssi) - 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.

Node Color

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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:

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Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

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[Homology]

Score

lacI

Transcriptional regulator, LacI family. (338 aa)

Predicted Functional Partners:

APF18488.1

0.852

APF20634.1

0.833

APF18136.1

0.817

APF18708.1

0.804

APF18707.1

0.779

APF18709.1

0.773

APF18706.1

0.662

APF18711.1

0.580

APF18705.1

0.487

APF18712.1

0.431

Your Current Organism:

Caldithrix abyssi

NCBI taxonomy Id: 880073
Other names: C. abyssi DSM 13497, Caldithrix abyssi DSM 13497, Caldithrix abyssi LF13, Caldithrix abyssi str. DSM 13497, Caldithrix abyssi strain DSM 13497

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... functional annotations:

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
APF18136.1	APF18709.1	Cabys_1387	Cabys_1960	Amino acid adenylation domain-containing protein.	Chitinase; Belongs to the glycosyl hydrolase 18 family.	0.523
APF18136.1	lacI	Cabys_1387	Cabys_1961	Amino acid adenylation domain-containing protein.	Transcriptional regulator, LacI family.	0.817
APF18488.1	lacI	Cabys_1739	Cabys_1961	Glutamate synthase (NADH) large subunit.	Transcriptional regulator, LacI family.	0.852
APF18705.1	APF18706.1	Cabys_1956	Cabys_1957	exo-1,4-beta-D-glucosaminidase; Belongs to the glycosyl hydrolase 2 family.	Fucose permease.	0.726
APF18705.1	APF18707.1	Cabys_1956	Cabys_1958	exo-1,4-beta-D-glucosaminidase; Belongs to the glycosyl hydrolase 2 family.	Glucokinase.	0.454
APF18705.1	APF18708.1	Cabys_1956	Cabys_1959	exo-1,4-beta-D-glucosaminidase; Belongs to the glycosyl hydrolase 2 family.	Non-processive endocellulase.	0.654
APF18705.1	APF18709.1	Cabys_1956	Cabys_1960	exo-1,4-beta-D-glucosaminidase; Belongs to the glycosyl hydrolase 2 family.	Chitinase; Belongs to the glycosyl hydrolase 18 family.	0.660
APF18705.1	lacI	Cabys_1956	Cabys_1961	exo-1,4-beta-D-glucosaminidase; Belongs to the glycosyl hydrolase 2 family.	Transcriptional regulator, LacI family.	0.487
APF18706.1	APF18705.1	Cabys_1957	Cabys_1956	Fucose permease.	exo-1,4-beta-D-glucosaminidase; Belongs to the glycosyl hydrolase 2 family.	0.726
APF18706.1	APF18707.1	Cabys_1957	Cabys_1958	Fucose permease.	Glucokinase.	0.714
APF18706.1	APF18708.1	Cabys_1957	Cabys_1959	Fucose permease.	Non-processive endocellulase.	0.554
APF18706.1	APF18709.1	Cabys_1957	Cabys_1960	Fucose permease.	Chitinase; Belongs to the glycosyl hydrolase 18 family.	0.612
APF18706.1	APF18711.1	Cabys_1957	Cabys_1962	Fucose permease.	Por secretion system C-terminal sorting domain-containing protein.	0.426
APF18706.1	lacI	Cabys_1957	Cabys_1961	Fucose permease.	Transcriptional regulator, LacI family.	0.662
APF18707.1	APF18705.1	Cabys_1958	Cabys_1956	Glucokinase.	exo-1,4-beta-D-glucosaminidase; Belongs to the glycosyl hydrolase 2 family.	0.454
APF18707.1	APF18706.1	Cabys_1958	Cabys_1957	Glucokinase.	Fucose permease.	0.714
APF18707.1	APF18708.1	Cabys_1958	Cabys_1959	Glucokinase.	Non-processive endocellulase.	0.784
APF18707.1	APF18709.1	Cabys_1958	Cabys_1960	Glucokinase.	Chitinase; Belongs to the glycosyl hydrolase 18 family.	0.776
APF18707.1	APF18711.1	Cabys_1958	Cabys_1962	Glucokinase.	Por secretion system C-terminal sorting domain-containing protein.	0.576
APF18707.1	APF18712.1	Cabys_1958	Cabys_1963	Glucokinase.	Por secretion system C-terminal sorting domain-containing protein.	0.462

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

37

average node degree:

6.73

avg. local clustering coefficient:

0.86

expected number of edges:

11

PPI enrichment p-value:

7.2e-10

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:0007018

Microtubule-based movement

7 of 32

2.29

5.16

1.09e-11

GO:0007017

Microtubule-based process

8 of 78

1.96

4.38

1.09e-11

GO:0010970

Transport along microtubule

5 of 15

2.47

4.07

1.16e-08

GO:0051293

Establishment of spindle localization

4 of 11

2.51

3.29

5.33e-07

GO:0000226

Microtubule cytoskeleton organization

6 of 63

1.93

3.26

2.70e-08

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0045505

Dynein intermediate chain binding

3 of 3

2.95

2.46

3.27e-05

GO:0045504

Dynein heavy chain binding

2 of 2

2.95

1.36

0.0035

GO:0005515

Protein binding

8 of 756

0.97

0.92

0.00014

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030286

Dynein complex

6 of 7

2.88

6.6

3.39e-13

GO:0005875

Microtubule associated complex

7 of 23

2.43

6.04

3.39e-13

GO:0005868

Cytoplasmic dynein complex

4 of 4

2.95

4.33

1.03e-08

GO:0005874

Microtubule

5 of 58

1.88

2.74

6.03e-07

GO:0005856

Cytoskeleton

8 of 239

1.47

2.4

6.59e-09

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:2858

Cytoplasmic dynein complex

5 of 5

2.95

5.14

2.87e-10

CL:3916

Dynactin complex, and F-actin capping protein complex

4 of 11

2.51

3.38

3.59e-07

CL:3919

Dynactin complex

2 of 5

2.55

1.33

0.0036

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map04145

Phagosome

3 of 64

1.62

1.02

0.0073

map05132

Salmonella infection

2 of 21

1.93

0.87

0.0216

map04144

Endocytosis

3 of 172

1.19

0.59

0.0420

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-6811436

COPI-independent Golgi-to-ER retrograde traffic

4 of 13

2.43

3.16

8.44e-07

MAP-6807878

COPI-mediated anterograde transport

5 of 46

1.98

2.81

8.44e-07

MAP-3371497

HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand

4 of 31

2.06

2.56

5.29e-06

MAP-199977

ER to Golgi Anterograde Transport

5 of 81

1.74

2.3

3.29e-06

MAP-948021

Transport to the Golgi and subsequent modification

5 of 86

1.71

2.25

3.76e-06

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0030286

Dynein complex

6 of 8

2.82

6.32

1.02e-12

GOCC:0005875

Microtubule associated complex

7 of 69

1.95

4.09

1.02e-10

GOCC:0015630

Microtubule cytoskeleton

9 of 159

1.7

3.7

1.85e-12

GOCC:0005856

Cytoskeleton

10 of 239

1.57

3.25

1.02e-12

GOCC:0035974

Meiotic spindle pole body

2 of 3

2.77

1.54

0.0016

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0206

Cytoskeleton

2 of 16

2.04

0.74

0.0409

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF12455

Dynein associated protein

2 of 2

2.95

1.19

0.0070

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR022157

Dynein associated protein

2 of 2

2.95

0.95

0.0193

IPR036859

CAP Gly-rich domain superfamily

2 of 5

2.55

0.81

0.0336

IPR000938

CAP Gly-rich domain

2 of 5

2.55

0.81

0.0336

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM01052

Cytoskeleton-associated proteins (CAPs) are involved in the organisation of microtubules and transportation of vesicles and organelles along the cytoskeletal network. A conserved motif, CAP-Gly, has been identified in a number of CAPs, including ...

2 of 5

2.55

1.15

0.0078

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