AFK62195.1 protein (Advenella kashmirensis WT001)

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second shell of interactors

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Known Interactions

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experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

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protein homology

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Score

AFK62195.1

COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain. (122 aa)

Predicted Functional Partners:

AFK62194.1

0.628

AFK62132.1

0.625

AFK64512.1

0.621

AFK62500.1

0.596

AFK60792.1

0.583

AFK61796.1

0.583

AFK63045.1

0.505

AFK62123.1

0.493

AFK61315.1

0.423

Your Current Organism:

Advenella kashmirensis WT001

NCBI taxonomy Id: 1036672
Other names: A. kashmirensis WT001, Advenella kashmirensis str. WT001, Advenella kashmirensis strain WT001, Tetrathiobacter kashmirensis WT001

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
AFK60792.1	AFK61315.1	TKWG_00370	TKWG_03670	COG0642 Signal transduction histidine kinase.	Phosphate regulon sensor protein; COG0642 Signal transduction histidine kinase.	0.444
AFK60792.1	AFK61796.1	TKWG_00370	TKWG_06795	COG0642 Signal transduction histidine kinase.	HAMP domain-containing protein 16; COG0642 Signal transduction histidine kinase.	0.413
AFK60792.1	AFK62123.1	TKWG_00370	TKWG_08895	COG0642 Signal transduction histidine kinase.	COG0642 Signal transduction histidine kinase.	0.451
AFK60792.1	AFK62195.1	TKWG_00370	TKWG_09345	COG0642 Signal transduction histidine kinase.	COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain.	0.583
AFK60792.1	AFK62500.1	TKWG_00370	TKWG_11490	COG0642 Signal transduction histidine kinase.	Two-component sensor kinase; COG2202 FOG: PAS/PAC domain.	0.768
AFK61315.1	AFK60792.1	TKWG_03670	TKWG_00370	Phosphate regulon sensor protein; COG0642 Signal transduction histidine kinase.	COG0642 Signal transduction histidine kinase.	0.444
AFK61315.1	AFK61796.1	TKWG_03670	TKWG_06795	Phosphate regulon sensor protein; COG0642 Signal transduction histidine kinase.	HAMP domain-containing protein 16; COG0642 Signal transduction histidine kinase.	0.456
AFK61315.1	AFK62132.1	TKWG_03670	TKWG_08950	Phosphate regulon sensor protein; COG0642 Signal transduction histidine kinase.	Histidine kinase; COG0642 Signal transduction histidine kinase.	0.424
AFK61315.1	AFK62195.1	TKWG_03670	TKWG_09345	Phosphate regulon sensor protein; COG0642 Signal transduction histidine kinase.	COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain.	0.423
AFK61315.1	AFK62500.1	TKWG_03670	TKWG_11490	Phosphate regulon sensor protein; COG0642 Signal transduction histidine kinase.	Two-component sensor kinase; COG2202 FOG: PAS/PAC domain.	0.766
AFK61315.1	AFK63045.1	TKWG_03670	TKWG_15115	Phosphate regulon sensor protein; COG0642 Signal transduction histidine kinase.	COG0642 Signal transduction histidine kinase.	0.432
AFK61315.1	AFK64512.1	TKWG_03670	TKWG_24815	Phosphate regulon sensor protein; COG0642 Signal transduction histidine kinase.	His Kinase A phosphoacceptor domain-containing protein 13; COG4252 Predicted transmembrane sensor domain.	0.433
AFK61796.1	AFK60792.1	TKWG_06795	TKWG_00370	HAMP domain-containing protein 16; COG0642 Signal transduction histidine kinase.	COG0642 Signal transduction histidine kinase.	0.413
AFK61796.1	AFK61315.1	TKWG_06795	TKWG_03670	HAMP domain-containing protein 16; COG0642 Signal transduction histidine kinase.	Phosphate regulon sensor protein; COG0642 Signal transduction histidine kinase.	0.456
AFK61796.1	AFK62123.1	TKWG_06795	TKWG_08895	HAMP domain-containing protein 16; COG0642 Signal transduction histidine kinase.	COG0642 Signal transduction histidine kinase.	0.456
AFK61796.1	AFK62195.1	TKWG_06795	TKWG_09345	HAMP domain-containing protein 16; COG0642 Signal transduction histidine kinase.	COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain.	0.583
AFK61796.1	AFK62500.1	TKWG_06795	TKWG_11490	HAMP domain-containing protein 16; COG0642 Signal transduction histidine kinase.	Two-component sensor kinase; COG2202 FOG: PAS/PAC domain.	0.816
AFK61796.1	AFK64512.1	TKWG_06795	TKWG_24815	HAMP domain-containing protein 16; COG0642 Signal transduction histidine kinase.	His Kinase A phosphoacceptor domain-containing protein 13; COG4252 Predicted transmembrane sensor domain.	0.511
AFK62123.1	AFK60792.1	TKWG_08895	TKWG_00370	COG0642 Signal transduction histidine kinase.	COG0642 Signal transduction histidine kinase.	0.451
AFK62123.1	AFK61796.1	TKWG_08895	TKWG_06795	COG0642 Signal transduction histidine kinase.	HAMP domain-containing protein 16; COG0642 Signal transduction histidine kinase.	0.456

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

24

average node degree:

4.36

avg. local clustering coefficient:

0.837

expected number of edges:

13

PPI enrichment p-value:

0.00571

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:0048643

Positive regulation of skeletal muscle tissue development

4 of 8

2.88

3.63

2.02e-07

GO:0048743

Positive regulation of skeletal muscle fiber development

3 of 4

3.05

2.97

4.00e-06

GO:0042693

Muscle cell fate commitment

3 of 12

2.58

2.37

3.83e-05

GO:0045663

Positive regulation of myoblast differentiation

3 of 15

2.48

2.25

6.08e-05

GO:0045165

Cell fate commitment

5 of 150

1.7

2.07

1.25e-05

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0070888

E-box binding

4 of 28

2.33

2.77

4.38e-06

GO:0043425

bHLH transcription factor binding

3 of 18

2.4

2.12

0.00010

GO:0046983

Protein dimerization activity

9 of 690

1.29

1.84

5.31e-08

GO:0140297

DNA-binding transcription factor binding

5 of 288

1.42

1.44

0.00015

GO:0000978

RNA polymerase II cis-regulatory region sequence-specific DNA binding

7 of 732

1.16

1.2

6.27e-05

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005667

Transcription regulator complex

7 of 333

1.5

2.12

5.73e-07

GO:0005634

Nucleus

11 of 5262

0.5

0.4

0.0021

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:38003577

(2023) Whole-Transcriptome RNA Sequencing Uncovers the Global Expression Changes and RNA Regulatory Networks in Duck Embryonic Myogenesis.

2 of 6

2.7

1.08

0.0112

PMID:37729680

(2023) Dietary zinc supplementation in breeding pigeons improves the carcass traits of squabs through regulating antioxidant capacity and myogenic regulatory factor expression.

2 of 3

3.0

1.08

0.0112

PMID:37170512

(2023) Current technologies, regulation, and future perspective of animal product analogs - A review.

2 of 4

2.88

1.08

0.0112

PMID:37108828

(2023) Sow-Offspring Diets Supplemented with Probiotics and Synbiotics Are Associated with Offsprings Growth Performance and Meat Quality.

2 of 5

2.78

1.08

0.0112

PMID:36697366

(2023) Genome-wide association studies demonstrate the genes associated with perimysial thickness in ducks.

2 of 4

2.88

1.08

0.0112

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:22056

RUNX1 regulates transcription of genes involved in differentiation of HSCs, and DNA-binding protein inhibitor

7 of 17

2.79

7.53

3.02e-15

CL:21810

DNA-binding transcription factor activity, RNA polymerase II-specific, and DNA-binding protein inhibitor

10 of 162

1.97

5.57

4.34e-16

CL:22058

RUNX1 regulates transcription of genes involved in differentiation of HSCs, and Runx inhibition domain

4 of 11

2.74

3.82

7.45e-08

CL:22080

DNA-binding protein inhibitor, and E-box binding

3 of 5

2.96

2.88

5.56e-06

CL:21814

Mixed, incl. Myogenesis, and Sox developmental protein N-terminal

3 of 34

2.12

1.64

0.00068

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-525793

Myogenesis

7 of 37

2.46

6.11

3.01e-13

MAP-1266738

Developmental Biology

7 of 573

1.27

1.45

1.48e-05

MAP-2559585

Oncogene Induced Senescence

2 of 11

2.44

0.96

0.0172

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005634

Nucleus

9 of 2704

0.7

0.51

0.0050

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF12232

Myogenic determination factor 5

2 of 2

3.18

1.3

0.0046

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR036638

Helix-loop-helix DNA-binding domain superfamily

6 of 85

2.03

3.29

6.24e-08

IPR011598

Myc-type, basic helix-loop-helix (bHLH) domain

6 of 85

2.03

3.29

6.24e-08

IPR039704

Myogenic factor

3 of 3

3.18

2.79

8.71e-06

IPR002546

Myogenic muscle-specific protein, N-terminal

3 of 3

3.18

2.79

8.71e-06

IPR022032

Myogenic determination factor 5

2 of 2

3.18

1.41

0.0029

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00353

Helix loop helix domain

6 of 89

2.01

3.55

9.76e-09

SM00520

Basic domain in HLH proteins of MYOD family

3 of 3

3.18

3.2

1.57e-06

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