AFE06455.1 protein (Corallococcus coralloides)

Nodes:

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query proteins and first shell of interactors

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second shell of interactors

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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

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[Homology]

Score

AFE06455.1

Hypothetical protein. (326 aa)

Predicted Functional Partners:

gspK

0.801

gspL

0.801

AFE06454.1

0.801

gspJ

0.794

AFE06453.1

0.791

AFE06451.1

0.779

AFE06452.1

0.779

gspG

0.621

anfA1

0.484

gspD

0.473

Your Current Organism:

Corallococcus coralloides

NCBI taxonomy Id: 1144275
Other names: C. coralloides DSM 2259, Corallococcus coralloides ATCC 25202, Corallococcus coralloides DSM 2259, Corallococcus coralloides NBRC 100086, Corallococcus coralloides str. DSM 2259, Corallococcus coralloides strain DSM 2259

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
AFE06451.1	AFE06452.1	COCOR_05580	COCOR_05581	Hypothetical protein.	Prepilin-type N-terminal cleavage/methylation domain-containing protein.	0.773
AFE06451.1	AFE06453.1	COCOR_05580	COCOR_05582	Hypothetical protein.	Hypothetical protein.	0.877
AFE06451.1	AFE06454.1	COCOR_05580	COCOR_05586	Hypothetical protein.	Hypothetical protein.	0.799
AFE06451.1	AFE06455.1	COCOR_05580	COCOR_05587	Hypothetical protein.	Hypothetical protein.	0.779
AFE06451.1	anfA1	COCOR_05580	COCOR_05588	Hypothetical protein.	Sigma-54 dependent transcription regulator.	0.484
AFE06451.1	gspD	COCOR_05580	COCOR_05575	Hypothetical protein.	General secretion pathway protein D.	0.832
AFE06451.1	gspG	COCOR_05580	COCOR_05579	Hypothetical protein.	General secretion pathway protein G.	0.672
AFE06451.1	gspJ	COCOR_05580	COCOR_05583	Hypothetical protein.	General secretion pathway protein J.	0.773
AFE06451.1	gspK	COCOR_05580	COCOR_05584	Hypothetical protein.	Putative general secretory pathway protein K.	0.900
AFE06451.1	gspL	COCOR_05580	COCOR_05585	Hypothetical protein.	Putative general secretion pathway protein L.	0.794
AFE06452.1	AFE06451.1	COCOR_05581	COCOR_05580	Prepilin-type N-terminal cleavage/methylation domain-containing protein.	Hypothetical protein.	0.773
AFE06452.1	AFE06453.1	COCOR_05581	COCOR_05582	Prepilin-type N-terminal cleavage/methylation domain-containing protein.	Hypothetical protein.	0.877
AFE06452.1	AFE06454.1	COCOR_05581	COCOR_05586	Prepilin-type N-terminal cleavage/methylation domain-containing protein.	Hypothetical protein.	0.799
AFE06452.1	AFE06455.1	COCOR_05581	COCOR_05587	Prepilin-type N-terminal cleavage/methylation domain-containing protein.	Hypothetical protein.	0.779
AFE06452.1	anfA1	COCOR_05581	COCOR_05588	Prepilin-type N-terminal cleavage/methylation domain-containing protein.	Sigma-54 dependent transcription regulator.	0.484
AFE06452.1	gspD	COCOR_05581	COCOR_05575	Prepilin-type N-terminal cleavage/methylation domain-containing protein.	General secretion pathway protein D.	0.500
AFE06452.1	gspG	COCOR_05581	COCOR_05579	Prepilin-type N-terminal cleavage/methylation domain-containing protein.	General secretion pathway protein G.	0.596
AFE06452.1	gspJ	COCOR_05581	COCOR_05583	Prepilin-type N-terminal cleavage/methylation domain-containing protein.	General secretion pathway protein J.	0.773
AFE06452.1	gspK	COCOR_05581	COCOR_05584	Prepilin-type N-terminal cleavage/methylation domain-containing protein.	Putative general secretory pathway protein K.	0.900
AFE06452.1	gspL	COCOR_05581	COCOR_05585	Prepilin-type N-terminal cleavage/methylation domain-containing protein.	Putative general secretion pathway protein L.	0.794

page 1 of 6

Network Stats

number of nodes:

11

number of edges:

40

average node degree:

7.27

avg. local clustering coefficient:

0.903

expected number of edges:

12

PPI enrichment p-value:

1.72e-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:0009071

Serine family amino acid catabolic process

6 of 18

2.75

5.75

1.12e-11

GO:0006544

Glycine metabolic process

6 of 21

2.69

5.67

1.23e-11

GO:0035999

Tetrahydrofolate interconversion

5 of 13

2.82

4.94

5.57e-10

GO:0019464

Glycine decarboxylation via glycine cleavage system

4 of 6

3.05

4.3

1.33e-08

GO:0009063

Cellular amino acid catabolic process

6 of 96

2.03

3.57

1.10e-08

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016742

Hydroxymethyl-, formyl- and related transferase activity

5 of 14

2.78

4.83

8.29e-10

GO:0004047

Aminomethyltransferase activity

3 of 5

3.01

2.79

8.33e-06

GO:0016741

Transferase activity, transferring one-carbon groups

6 of 228

1.65

2.23

2.33e-06

GO:0016646

Oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor

3 of 20

2.41

1.97

0.00020

GO:0016597

Amino acid binding

3 of 39

2.12

1.63

0.00072

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005960

Glycine cleavage complex

3 of 5

3.01

2.74

1.04e-05

GO:1990204

Oxidoreductase complex

4 of 132

1.71

1.55

0.00043

GO:0005739

Mitochondrion

9 of 1502

1.01

1.07

1.04e-05

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:9848

One carbon pool by folate, and Glycine cleavage complex

9 of 22

2.84

10.45

2.96e-21

CL:9846

One carbon pool by folate, and Serine family amino acid metabolic process

10 of 51

2.52

9.54

2.83e-21

CL:9589

Mixed, incl. Carbon metabolism, and One-carbon metabolic process

11 of 192

1.99

6.44

1.29e-19

CL:9850

One carbon pool by folate

5 of 12

2.85

5.36

8.81e-11

CL:9878

Glycine catabolic process

4 of 5

3.13

4.58

4.20e-09

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

umr00670

One carbon pool by folate

7 of 17

2.85

8.13

2.38e-16

umr00630

Glyoxylate and dicarboxylate metabolism

6 of 29

2.55

5.88

2.08e-12

umr00260

Glycine, serine and threonine metabolism

6 of 33

2.49

5.75

2.78e-12

umr01200

Carbon metabolism

7 of 99

2.08

4.85

4.12e-12

umr01523

Antifolate resistance

4 of 25

2.43

3.64

8.43e-08

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-6783984

Glycine degradation

5 of 7

3.08

5.69

3.24e-11

MAP-196757

Metabolism of folate and pterines

5 of 21

2.61

4.62

1.34e-09

MAP-389661

Glyoxylate metabolism and glycine degradation

5 of 34

2.4

4.09

7.79e-09

MAP-196849

Metabolism of water-soluble vitamins and cofactors

5 of 156

1.74

2.23

5.54e-06

MAP-71291

Metabolism of amino acids and derivatives

6 of 315

1.51

1.96

3.54e-06

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005960

Glycine cleavage complex

4 of 7

2.99

4.04

3.85e-08

GOCC:0044672

acetyl-CoA decarbonylase/synthase-carbon monoxide dehydrogenase complex

2 of 4

2.93

1.41

0.0028

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0809

Transit peptide

3 of 19

2.43

2.18

8.01e-05

KW-0450

Lipoyl

2 of 5

2.83

1.63

0.0011

KW-0496

Mitochondrion

3 of 142

1.56

0.98

0.0083

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF02882

Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain

2 of 4

2.93

1.21

0.0066

PF00763

Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain

2 of 4

2.93

1.21

0.0066

PF00464

Serine hydroxymethyltransferase

2 of 3

3.05

1.21

0.0066

PF01597

Glycine cleavage H-protein

2 of 5

2.83

1.2

0.0066

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR046346

Aminoacid dehydrogenase-like, N-terminal domain superfamily

2 of 2

3.23

1.18

0.0076

IPR020867

Tetrahydrofolate dehydrogenase/cyclohydrolase, conserved site

2 of 2

3.23

1.18

0.0076

IPR020631

Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain

2 of 2

3.23

1.18

0.0076

IPR020630

Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain

2 of 2

3.23

1.18

0.0076

IPR000672

Tetrahydrofolate dehydrogenase/cyclohydrolase

2 of 2

3.23

1.18

0.0076

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