AFK62726.1 protein (Advenella kashmirensis WT001)

Nodes:

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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

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

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Textmining

[Homology]

Score

AFK62726.1

COG2186 Transcriptional regulators. (278 aa)

Predicted Functional Partners:

AFK64163.1

0.782

AFK63678.1

0.780

AFK64168.1

0.780

AFK61815.1

0.779

AFK63357.1

0.779

AFK62727.1

0.687

AFK62725.1

0.489

AFK62724.1

0.469

AFK63435.1

0.457

AFK62723.1

0.431

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
AFK61815.1	AFK62726.1	TKWG_06910	TKWG_12980	COG2186 Transcriptional regulators.	COG2186 Transcriptional regulators.	0.779
AFK61815.1	AFK63678.1	TKWG_06910	TKWG_19345	COG2186 Transcriptional regulators.	COG2186 Transcriptional regulators.	0.774
AFK62723.1	AFK62724.1	TKWG_12965	TKWG_12970	COG1126 ABC-type polar amino acid transport system, ATPase component.	COG0765 ABC-type amino acid transport system, permease component.	0.995
AFK62723.1	AFK62725.1	TKWG_12965	TKWG_12975	COG1126 ABC-type polar amino acid transport system, ATPase component.	COG0765 ABC-type amino acid transport system, permease component.	0.994
AFK62723.1	AFK62726.1	TKWG_12965	TKWG_12980	COG1126 ABC-type polar amino acid transport system, ATPase component.	COG2186 Transcriptional regulators.	0.431
AFK62724.1	AFK62723.1	TKWG_12970	TKWG_12965	COG0765 ABC-type amino acid transport system, permease component.	COG1126 ABC-type polar amino acid transport system, ATPase component.	0.995
AFK62724.1	AFK62725.1	TKWG_12970	TKWG_12975	COG0765 ABC-type amino acid transport system, permease component.	COG0765 ABC-type amino acid transport system, permease component.	0.979
AFK62724.1	AFK62726.1	TKWG_12970	TKWG_12980	COG0765 ABC-type amino acid transport system, permease component.	COG2186 Transcriptional regulators.	0.469
AFK62724.1	AFK62727.1	TKWG_12970	TKWG_12985	COG0765 ABC-type amino acid transport system, permease component.	COG2721 Altronate dehydratase.	0.400
AFK62725.1	AFK62723.1	TKWG_12975	TKWG_12965	COG0765 ABC-type amino acid transport system, permease component.	COG1126 ABC-type polar amino acid transport system, ATPase component.	0.994
AFK62725.1	AFK62724.1	TKWG_12975	TKWG_12970	COG0765 ABC-type amino acid transport system, permease component.	COG0765 ABC-type amino acid transport system, permease component.	0.979
AFK62725.1	AFK62726.1	TKWG_12975	TKWG_12980	COG0765 ABC-type amino acid transport system, permease component.	COG2186 Transcriptional regulators.	0.489
AFK62725.1	AFK62727.1	TKWG_12975	TKWG_12985	COG0765 ABC-type amino acid transport system, permease component.	COG2721 Altronate dehydratase.	0.415
AFK62726.1	AFK61815.1	TKWG_12980	TKWG_06910	COG2186 Transcriptional regulators.	COG2186 Transcriptional regulators.	0.779
AFK62726.1	AFK62723.1	TKWG_12980	TKWG_12965	COG2186 Transcriptional regulators.	COG1126 ABC-type polar amino acid transport system, ATPase component.	0.431
AFK62726.1	AFK62724.1	TKWG_12980	TKWG_12970	COG2186 Transcriptional regulators.	COG0765 ABC-type amino acid transport system, permease component.	0.469
AFK62726.1	AFK62725.1	TKWG_12980	TKWG_12975	COG2186 Transcriptional regulators.	COG0765 ABC-type amino acid transport system, permease component.	0.489
AFK62726.1	AFK62727.1	TKWG_12980	TKWG_12985	COG2186 Transcriptional regulators.	COG2721 Altronate dehydratase.	0.687
AFK62726.1	AFK63357.1	TKWG_12980	TKWG_17235	COG2186 Transcriptional regulators.	COG2186 Transcriptional regulators.	0.779
AFK62726.1	AFK63435.1	TKWG_12980	TKWG_17715	COG2186 Transcriptional regulators.	COG1802 Transcriptional regulators.	0.457

page 1 of 2

Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

15

PPI enrichment p-value:

4.11e-15

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:0006260

DNA replication

8 of 29

1.56

2.69

3.13e-09

GO:0006259

DNA metabolic process

11 of 76

1.28

2.12

1.40e-11

GO:0006974

Cellular response to DNA damage stimulus

5 of 32

1.31

1.3

0.00020

GO:0006261

DNA-templated DNA replication

3 of 9

1.64

1.25

0.0021

GO:0006281

DNA repair

4 of 30

1.25

1.0

0.0021

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003887

DNA-directed DNA polymerase activity

7 of 7

2.12

4.4

1.53e-10

GO:0140097

Catalytic activity, acting on DNA

9 of 42

1.45

2.54

2.47e-10

GO:0004527

Exonuclease activity

5 of 14

1.67

2.14

5.92e-06

GO:0008408

3-5 exonuclease activity

3 of 5

1.9

1.57

0.00067

GO:0003677

DNA binding

8 of 119

0.95

0.96

1.90e-05

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0009360

DNA polymerase III complex

3 of 3

2.12

1.71

0.00048

GO:1902494

Catalytic complex

4 of 28

1.28

1.07

0.0013

GO:1990391

DNA repair complex

2 of 5

1.72

0.99

0.0102

GO:0032991

Protein-containing complex

5 of 88

0.88

0.66

0.0035

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:514

DNA polymerase activity, and Mismatch repair

8 of 12

1.94

4.5

2.91e-12

CL:510

Mismatch repair, and SOS response

9 of 23

1.71

3.76

1.77e-12

CL:509

Mismatch repair, and DNA-templated DNA replication

10 of 30

1.64

3.68

1.11e-13

CL:507

Catalytic activity, acting on DNA, and Mismatch repair

11 of 38

1.58

3.58

5.37e-15

CL:516

DNA polymerase activity

5 of 5

2.12

3.3

1.20e-07

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03430

Mismatch repair

7 of 18

1.71

3.03

5.03e-09

map03030

DNA replication

7 of 18

1.71

3.03

5.03e-09

map03440

Homologous recombination

7 of 27

1.53

2.48

1.84e-08

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0009360

DNA polymerase III complex

4 of 4

2.12

2.35

1.96e-05

GOCC:0061695

Transferase complex, transferring phosphorus-containing groups

5 of 24

1.44

1.59

4.98e-05

GOCC:1902494

Catalytic complex

6 of 69

1.06

1.01

0.00018

GOCC:1990391

DNA repair complex

2 of 6

1.64

0.77

0.0288

GOCC:0032991

Protein-containing complex

7 of 175

0.72

0.56

0.0024

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0239

DNA-directed DNA polymerase

4 of 4

2.12

2.41

1.44e-05

KW-0235

DNA replication

5 of 14

1.67

2.02

1.44e-05

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