CD943_06915 protein (Brevundimonas diminuta)

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.

Node Color

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:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

CD943_06915

Unannotated protein. (261 aa)

Predicted Functional Partners:

CD943_06910

0.783

GCA_000988015_02101

0.748

yciK

0.733

CD943_05995

0.676

CD943_09125

0.646

ubiE

0.564

ubiB

0.560

GCA_000988015_00717

0.501

CD943_06895

0.488

fabD

0.450

Your Current Organism:

Brevundimonas diminuta

NCBI taxonomy Id: 293
Other names: AJ 2067, ATCC 11568, B. diminuta, BCRC 11894, Bacterium parvulum, CCEB 513, CCRC 11894, CCRC:11894, CECT 317, CIP 63.27, DSM 7234, IAM 12691, IFO 12697, IMET 10409, JCM 2788, LMG 2088, LMG 2089, LMG:2088, LMG:2089, NBRC 12697, NCAIM B.01118, NCCB 76050, NCIB 9393, NCIMB 9393, NCTC 8545, Pseudomonas diminuta

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
CD943_05995	CD943_06915	GCA_000988015_02120	GCA_000988015_02324	Unannotated protein.	Unannotated protein.	0.676
CD943_05995	GCA_000988015_00717	GCA_000988015_02120	GCA_000988015_00717	Unannotated protein.	Unannotated protein.	0.501
CD943_05995	GCA_000988015_02101	GCA_000988015_02120	GCA_000988015_02101	Unannotated protein.	Unannotated protein.	0.655
CD943_05995	fabD	GCA_000988015_02120	GCA_000988015_01400	Unannotated protein.	Unannotated protein.	0.517
CD943_05995	yciK	GCA_000988015_02120	GCA_000988015_01416	Unannotated protein.	Unannotated protein.	0.464
CD943_06895	CD943_06910	GCA_000988015_02320	GCA_000988015_02323	Unannotated protein.	Unannotated protein.	0.488
CD943_06895	CD943_06915	GCA_000988015_02320	GCA_000988015_02324	Unannotated protein.	Unannotated protein.	0.488
CD943_06895	ubiB	GCA_000988015_02320	GCA_000988015_02321	Unannotated protein.	Unannotated protein.	0.705
CD943_06895	ubiE	GCA_000988015_02320	GCA_000988015_02322	Unannotated protein.	Unannotated protein; Methyltransferase required for the conversion of demethylmenaquinol (DMKH2) to menaquinol (MKH2) and the conversion of 2-polyprenyl-6-methoxy-1,4-benzoquinol (DDMQH2) to 2-polyprenyl-3- methyl-6-methoxy-1,4-benzoquinol (DMQH2).	0.705
CD943_06910	CD943_06895	GCA_000988015_02323	GCA_000988015_02320	Unannotated protein.	Unannotated protein.	0.488
CD943_06910	CD943_06915	GCA_000988015_02323	GCA_000988015_02324	Unannotated protein.	Unannotated protein.	0.783
CD943_06910	ubiB	GCA_000988015_02323	GCA_000988015_02321	Unannotated protein.	Unannotated protein.	0.542
CD943_06910	ubiE	GCA_000988015_02323	GCA_000988015_02322	Unannotated protein.	Unannotated protein; Methyltransferase required for the conversion of demethylmenaquinol (DMKH2) to menaquinol (MKH2) and the conversion of 2-polyprenyl-6-methoxy-1,4-benzoquinol (DDMQH2) to 2-polyprenyl-3- methyl-6-methoxy-1,4-benzoquinol (DMQH2).	0.530
CD943_06915	CD943_05995	GCA_000988015_02324	GCA_000988015_02120	Unannotated protein.	Unannotated protein.	0.676
CD943_06915	CD943_06895	GCA_000988015_02324	GCA_000988015_02320	Unannotated protein.	Unannotated protein.	0.488
CD943_06915	CD943_06910	GCA_000988015_02324	GCA_000988015_02323	Unannotated protein.	Unannotated protein.	0.783
CD943_06915	CD943_09125	GCA_000988015_02324	GCA_000988015_02760	Unannotated protein.	Unannotated protein.	0.646
CD943_06915	GCA_000988015_00717	GCA_000988015_02324	GCA_000988015_00717	Unannotated protein.	Unannotated protein.	0.501
CD943_06915	GCA_000988015_02101	GCA_000988015_02324	GCA_000988015_02101	Unannotated protein.	Unannotated protein.	0.748
CD943_06915	fabD	GCA_000988015_02324	GCA_000988015_01400	Unannotated protein.	Unannotated protein.	0.450

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

38

average node degree:

6.91

avg. local clustering coefficient:

0.695

expected number of edges:

11

PPI enrichment p-value:

9.53e-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:0055085

Transmembrane transport

9 of 210

1.08

1.29

4.63e-07

GO:0006810

Transport

11 of 304

1.0

1.24

1.05e-08

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0140359

ABC-type transporter activity

3 of 23

1.56

0.69

0.0399

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005886

Plasma membrane

9 of 333

0.88

0.87

1.21e-05

GO:0016021

Integral component of membrane

7 of 569

0.54

0.34

0.0364

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:2973

ABC transporter type 1, transmembrane domain MetI-like, and Bacterial extracellular solute-binding protein

11 of 18

2.23

8.2

3.31e-21

CL:2974

ABC transporter type 1, transmembrane domain MetI-like, and ABC transporter, maltose/maltodextrin import, MalK-like

7 of 12

2.21

5.27

2.19e-12

CL:2997

ABC transporter type 1, transmembrane domain MetI-like, and Bacterial extracellular solute-binding protein

4 of 6

2.27

3.01

1.12e-06

CL:2975

ABC transporter type 1, transmembrane domain MetI-like, and TOBE domain

4 of 6

2.27

3.01

1.12e-06

CL:2986

ABC transporter type 1, transmembrane domain MetI-like, and ABC transporter, maltose/maltodextrin import, MalK-like

3 of 6

2.14

1.97

0.00014

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map02010

ABC transporters

11 of 106

1.46

3.01

1.47e-14

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0055052

ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing

6 of 6

2.45

5.4

1.22e-11

GOCC:0043190

ATP-binding cassette (ABC) transporter complex

9 of 29

1.94

5.0

2.68e-14

GOCC:0110165

Cellular anatomical entity

11 of 1512

0.31

0.27

0.0063

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0813

Transport

9 of 77

1.51

2.81

6.08e-11

KW-1003

Cell membrane

7 of 74

1.42

2.05

1.73e-07

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF00528

Binding-protein-dependent transport system inner membrane component

7 of 15

2.11

4.6

4.05e-11

PF13416

Bacterial extracellular solute-binding protein

2 of 3

2.27

0.9

0.0217

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR000515

ABC transporter type 1, transmembrane domain MetI-like

7 of 15

2.11

4.45

1.05e-10

IPR035906

MetI-like superfamily

7 of 16

2.09

4.39

1.05e-10

IPR015855

ABC transporter, maltose/maltodextrin import, MalK-like

2 of 2

2.45

0.9

0.0226

IPR008995

Molybdate/tungstate binding, C-terminal

2 of 3

2.27

0.84

0.0282

IPR006059

Bacterial extracellular solute-binding protein

2 of 3

2.27

0.84

0.0282

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