API61137.1 protein (Tardibacter chloracetimidivorans)

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

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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:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

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[Homology]

Score

API61137.1

Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (246 aa)

Predicted Functional Partners:

API58906.1

0.628

API60020.1

0.508

API61163.1

0.508

API57919.1

0.488

API60050.1

0.475

API60683.1

0.468

API58578.1

0.425

API59986.1

0.423

Your Current Organism:

Tardibacter chloracetimidivorans

NCBI taxonomy Id: 1921510
Other names: JJ-A5, KACC 19450, NBRC 113160, Sphingomonas sp. JJ-A5, T. chloracetimidivorans

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
API57919.1	API58906.1	BSL82_00230	BSL82_05925	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Multidrug transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.416
API57919.1	API59986.1	BSL82_00230	BSL82_12240	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.477
API57919.1	API61137.1	BSL82_00230	BSL82_12660	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.488
API58578.1	API61137.1	BSL82_03995	BSL82_12660	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.425
API58906.1	API57919.1	BSL82_05925	BSL82_00230	Multidrug transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.416
API58906.1	API59986.1	BSL82_05925	BSL82_12240	Multidrug transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.436
API58906.1	API61137.1	BSL82_05925	BSL82_12660	Multidrug transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.628
API59986.1	API57919.1	BSL82_12240	BSL82_00230	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.477
API59986.1	API58906.1	BSL82_12240	BSL82_05925	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Multidrug transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.436
API59986.1	API60683.1	BSL82_12240	BSL82_16445	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.780
API59986.1	API61137.1	BSL82_12240	BSL82_12660	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.423
API60020.1	API60683.1	BSL82_12470	BSL82_16445	TonB-dependent receptor; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.731
API60020.1	API61137.1	BSL82_12470	BSL82_12660	TonB-dependent receptor; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.508
API60050.1	API61137.1	BSL82_12665	BSL82_12660	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.475
API60683.1	API59986.1	BSL82_16445	BSL82_12240	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.780
API60683.1	API60020.1	BSL82_16445	BSL82_12470	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	TonB-dependent receptor; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.731
API60683.1	API61137.1	BSL82_16445	BSL82_12660	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.468
API60683.1	API61163.1	BSL82_16445	BSL82_13830	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.619
API61137.1	API57919.1	BSL82_12660	BSL82_00230	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.488
API61137.1	API58578.1	BSL82_12660	BSL82_03995	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.425

page 1 of 2

Network Stats

number of nodes:

11

number of edges:

51

average node degree:

9.27

avg. local clustering coefficient:

0.927

expected number of edges:

17

PPI enrichment p-value:

3.45e-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:0046653

Tetrahydrofolate metabolic process

6 of 19

2.08

3.73

7.06e-09

GO:0006575

Cellular modified amino acid metabolic process

9 of 85

1.61

3.12

6.68e-11

GO:0042219

Cellular modified amino acid catabolic process

3 of 12

1.98

1.48

0.0012

GO:1901606

Alpha-amino acid catabolic process

3 of 25

1.66

1.04

0.0072

GO:0009063

Cellular amino acid catabolic process

3 of 29

1.6

0.98

0.0087

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0008115

Sarcosine oxidase activity

9 of 12

2.46

7.93

1.10e-17

GO:0016491

Oxidoreductase activity

11 of 540

0.89

1.01

3.40e-08

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:2607

Sarcosine oxidase activity, and FAD dependent oxidoreductase

9 of 21

2.22

6.6

3.22e-16

CL:2610

Sarcosine oxidase activity, and FAD dependent oxidoreductase central domain

8 of 15

2.31

6.45

6.39e-15

CL:2604

Oxidoreductase activity, acting on the CH-NH group of donors, and Sarcosine oxidase subunit beta

10 of 36

2.03

5.99

8.98e-17

CL:2629

Sarcosine oxidase activity

3 of 5

2.36

2.13

9.08e-05

CL:2612

Aminomethyltransferase folate-binding domain

2 of 5

2.19

0.99

0.0142

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00260

Glycine, serine and threonine metabolism

3 of 61

1.27

0.66

0.0317

map01100

Metabolic pathways

11 of 1574

0.43

0.35

0.0026

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0489

Methyltransferase

4 of 85

1.26

0.8

0.0116

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF01571

Aminomethyltransferase folate-binding domain

5 of 12

2.2

3.34

1.54e-07

PF13510

2Fe-2S iron-sulfur cluster binding domain

4 of 5

2.49

3.16

9.55e-07

PF08669

Glycine cleavage T-protein C-terminal barrel domain

4 of 12

2.11

2.49

9.11e-06

PF04268

Sarcosine oxidase, gamma subunit family

2 of 4

2.28

1.0

0.0141

PF04267

Sarcosine oxidase, delta subunit family

2 of 4

2.28

1.0

0.0141

(more ...)

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR027266

GTP-binding protein TrmE/Aminomethyltransferase GcvT, domain 1

7 of 17

2.2

4.78

3.80e-11

IPR042204

2Fe-2S iron-sulfur cluster binding domain, N-terminal

4 of 4

2.58

3.11

1.39e-06

IPR041117

SoxA, A3 domain

4 of 4

2.58

3.11

1.39e-06

IPR006277

Sarcosine oxidase, alpha subunit

4 of 4

2.58

3.11

1.39e-06

IPR028896

Aminomethyltransferase-like

4 of 9

2.23

2.66

5.63e-06

(more ...)

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