GAT87228.1 protein (Paenarthrobacter nicotinovorans)

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.

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colored nodes:
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

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[Homology]

Score

GAT87228.1

ABC transporter substrate-binding protein. (359 aa)

Predicted Functional Partners:

GAT87227.1

0.995

GAT86740.1

0.961

GAT87793.1

0.961

GAT86535.1

0.951

GAT85372.1

0.951

GAT89273.1

0.951

GAT86223.1

0.951

GAT86226.1

0.951

GAT87229.1

0.816

GAT86681.1

0.812

Your Current Organism:

Paenarthrobacter nicotinovorans

NCBI taxonomy Id: 29320
Other names: ATCC 49919, Arthrobacter nicotinivorans, Arthrobacter nicotinovorans, Arthrobacter oxydans DSM 420, CIP 106990, DSM 420, IFO 15511, JCM 3874, LMG 16253, LMG:16253, NBRC 15511, P. nicotinovorans

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structured XML interaction data, according to the 'PSI-MI' data standard

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MFA: multi-fasta format - containing the aminoacid sequences in the network

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... functional annotations:

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a tab-delimited file containing all known functional terms of protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
GAT85372.1	GAT86681.1	CVCC1112_32	CVCC1112_1340	ABC transporter ATP-binding protein.	Hypothetical protein.	0.772
GAT85372.1	GAT86740.1	CVCC1112_32	CVCC1112_1399	ABC transporter ATP-binding protein.	Hypothetical protein; Belongs to the ABC transporter superfamily. Macrolide exporter (TC 3.A.1.122) family.	0.880
GAT85372.1	GAT87228.1	CVCC1112_32	CVCC1112_1887	ABC transporter ATP-binding protein.	ABC transporter substrate-binding protein.	0.951
GAT85372.1	GAT87793.1	CVCC1112_32	CVCC1112_2452	ABC transporter ATP-binding protein.	Hypothetical protein M707_21210; Belongs to the ABC transporter superfamily. Macrolide exporter (TC 3.A.1.122) family.	0.876
GAT86223.1	GAT86681.1	CVCC1112_883	CVCC1112_1340	ABC transporter.	Hypothetical protein.	0.772
GAT86223.1	GAT86740.1	CVCC1112_883	CVCC1112_1399	ABC transporter.	Hypothetical protein; Belongs to the ABC transporter superfamily. Macrolide exporter (TC 3.A.1.122) family.	0.892
GAT86223.1	GAT87228.1	CVCC1112_883	CVCC1112_1887	ABC transporter.	ABC transporter substrate-binding protein.	0.951
GAT86223.1	GAT87793.1	CVCC1112_883	CVCC1112_2452	ABC transporter.	Hypothetical protein M707_21210; Belongs to the ABC transporter superfamily. Macrolide exporter (TC 3.A.1.122) family.	0.885
GAT86226.1	GAT86681.1	CVCC1112_886	CVCC1112_1340	Peptide ABC transporter ATP-binding protein.	Hypothetical protein.	0.772
GAT86226.1	GAT86740.1	CVCC1112_886	CVCC1112_1399	Peptide ABC transporter ATP-binding protein.	Hypothetical protein; Belongs to the ABC transporter superfamily. Macrolide exporter (TC 3.A.1.122) family.	0.879
GAT86226.1	GAT87228.1	CVCC1112_886	CVCC1112_1887	Peptide ABC transporter ATP-binding protein.	ABC transporter substrate-binding protein.	0.951
GAT86226.1	GAT87793.1	CVCC1112_886	CVCC1112_2452	Peptide ABC transporter ATP-binding protein.	Hypothetical protein M707_21210; Belongs to the ABC transporter superfamily. Macrolide exporter (TC 3.A.1.122) family.	0.877
GAT86535.1	GAT86681.1	CVCC1112_1195	CVCC1112_1340	ABC transporter.	Hypothetical protein.	0.772
GAT86535.1	GAT86740.1	CVCC1112_1195	CVCC1112_1399	ABC transporter.	Hypothetical protein; Belongs to the ABC transporter superfamily. Macrolide exporter (TC 3.A.1.122) family.	0.876
GAT86535.1	GAT87228.1	CVCC1112_1195	CVCC1112_1887	ABC transporter.	ABC transporter substrate-binding protein.	0.951
GAT86535.1	GAT87793.1	CVCC1112_1195	CVCC1112_2452	ABC transporter.	Hypothetical protein M707_21210; Belongs to the ABC transporter superfamily. Macrolide exporter (TC 3.A.1.122) family.	0.870
GAT86681.1	GAT85372.1	CVCC1112_1340	CVCC1112_32	Hypothetical protein.	ABC transporter ATP-binding protein.	0.772
GAT86681.1	GAT86223.1	CVCC1112_1340	CVCC1112_883	Hypothetical protein.	ABC transporter.	0.772
GAT86681.1	GAT86226.1	CVCC1112_1340	CVCC1112_886	Hypothetical protein.	Peptide ABC transporter ATP-binding protein.	0.772
GAT86681.1	GAT86535.1	CVCC1112_1340	CVCC1112_1195	Hypothetical protein.	ABC transporter.	0.772

page 1 of 4

Network Stats

number of nodes:

11

number of edges:

48

average node degree:

8.73

avg. local clustering coefficient:

0.867

expected number of edges:

14

PPI enrichment p-value:

4.64e-13

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:0006865

Amino acid transport

7 of 26

1.91

3.63

1.58e-09

GO:0015803

Branched-chain amino acid transport

4 of 4

2.48

3.11

1.19e-06

GO:0003333

Amino acid transmembrane transport

4 of 7

2.24

2.75

3.71e-06

GO:0006810

Transport

9 of 417

0.82

0.77

4.16e-05

GO:0055085

Transmembrane transport

6 of 313

0.77

0.49

0.0196

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0015658

Branched-chain amino acid transmembrane transporter activity

2 of 2

2.48

0.81

0.0341

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005886

Plasma membrane

9 of 526

0.72

0.61

0.00031

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:5595

Branched-chain amino acid transport, and Leucine-binding protein domain

9 of 10

2.44

7.73

2.44e-17

CL:5596

Branched-chain amino acid transport, and Leucine-binding protein domain

5 of 5

2.48

4.3

3.88e-09

CL:5605

Branched-chain amino acid transport, and Leucine-binding protein domain

4 of 5

2.39

3.15

7.96e-07

CL:2328

Mixed, incl. PAS fold, and HPT domain superfamily

2 of 6

2.01

0.86

0.0242

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map02024

Quorum sensing

9 of 115

1.38

2.27

5.89e-10

map02010

ABC transporters

9 of 243

1.05

1.27

1.89e-07

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0016020

Membrane

9 of 535

0.71

0.58

0.00066

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF02653

Branched-chain amino acid transport system / permease component

4 of 20

1.78

1.64

0.00032

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR001851

ABC transporter, permease

4 of 20

1.78

1.47

0.00085

IPR043428

High-affinity branched-chain amino acid transport system permease protein LivM-like

2 of 2

2.48

0.78

0.0388

IPR032823

Branched-chain amino acid ATP-binding cassette transporter, C-terminal

2 of 2

2.48

0.78

0.0388

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