ALI29158.1 protein (Mycolicibacterium fortuitum)

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:

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Gene Fusion

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[Homology]

Score

ALI29158.1

Transcriptional regulator, TetR family. (205 aa)

Predicted Functional Partners:

ALI24261.1

0.655

ALI25521.1

0.561

ALI28897.1

0.556

kdpE

0.551

ALI24361.1

0.545

ALI26098.1

0.516

ALI28217.1

0.515

mntR

0.514

ALI24495.1

0.492

ALI25603.1

0.490

Your Current Organism:

Mycolicibacterium fortuitum

NCBI taxonomy Id: 1766
Other names: ATCC 6841, CCUG 20994, CIP 104534, DSM 46621, IFO 13159, JCM 6387, M. fortuitum, Mycobacterium fortuitum, Mycobacterium giae, Mycobacterium minetti, NBRC 13159, NCTC 10394

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ALI24261.1	ALI24361.1	XA26_03950	XA26_05000	Transcriptional regulator, TetR family.	Chromosome initiation inhibitor; Belongs to the LysR transcriptional regulatory family.	0.460
ALI24261.1	ALI25521.1	XA26_03950	XA26_16740	Transcriptional regulator, TetR family.	Hypothetical protein.	0.480
ALI24261.1	ALI29158.1	XA26_03950	XA26_53660	Transcriptional regulator, TetR family.	Transcriptional regulator, TetR family.	0.655
ALI24261.1	mntR	XA26_03950	XA26_25620	Transcriptional regulator, TetR family.	MntR.	0.410
ALI24361.1	ALI24261.1	XA26_05000	XA26_03950	Chromosome initiation inhibitor; Belongs to the LysR transcriptional regulatory family.	Transcriptional regulator, TetR family.	0.460
ALI24361.1	ALI24495.1	XA26_05000	XA26_06350	Chromosome initiation inhibitor; Belongs to the LysR transcriptional regulatory family.	Putative TRANSCRIPTIONAL REGULATORY PROTEIN.	0.725
ALI24361.1	ALI25521.1	XA26_05000	XA26_16740	Chromosome initiation inhibitor; Belongs to the LysR transcriptional regulatory family.	Hypothetical protein.	0.702
ALI24361.1	ALI25603.1	XA26_05000	XA26_17560	Chromosome initiation inhibitor; Belongs to the LysR transcriptional regulatory family.	Putative RNA polymerase sigma factor; Belongs to the sigma-70 factor family.	0.676
ALI24361.1	ALI26098.1	XA26_05000	XA26_22530	Chromosome initiation inhibitor; Belongs to the LysR transcriptional regulatory family.	Transcriptional regulator, HxlR family.	0.725
ALI24361.1	ALI29158.1	XA26_05000	XA26_53660	Chromosome initiation inhibitor; Belongs to the LysR transcriptional regulatory family.	Transcriptional regulator, TetR family.	0.545
ALI24361.1	kdpE	XA26_05000	XA26_48070	Chromosome initiation inhibitor; Belongs to the LysR transcriptional regulatory family.	KdpE.	0.732
ALI24361.1	mntR	XA26_05000	XA26_25620	Chromosome initiation inhibitor; Belongs to the LysR transcriptional regulatory family.	MntR.	0.717
ALI24495.1	ALI24361.1	XA26_06350	XA26_05000	Putative TRANSCRIPTIONAL REGULATORY PROTEIN.	Chromosome initiation inhibitor; Belongs to the LysR transcriptional regulatory family.	0.725
ALI24495.1	ALI25521.1	XA26_06350	XA26_16740	Putative TRANSCRIPTIONAL REGULATORY PROTEIN.	Hypothetical protein.	0.737
ALI24495.1	ALI25603.1	XA26_06350	XA26_17560	Putative TRANSCRIPTIONAL REGULATORY PROTEIN.	Putative RNA polymerase sigma factor; Belongs to the sigma-70 factor family.	0.573
ALI24495.1	ALI26098.1	XA26_06350	XA26_22530	Putative TRANSCRIPTIONAL REGULATORY PROTEIN.	Transcriptional regulator, HxlR family.	0.721
ALI24495.1	ALI28897.1	XA26_06350	XA26_51030	Putative TRANSCRIPTIONAL REGULATORY PROTEIN.	TrcR-like protein.	0.410
ALI24495.1	ALI29158.1	XA26_06350	XA26_53660	Putative TRANSCRIPTIONAL REGULATORY PROTEIN.	Transcriptional regulator, TetR family.	0.492
ALI24495.1	kdpE	XA26_06350	XA26_48070	Putative TRANSCRIPTIONAL REGULATORY PROTEIN.	KdpE.	0.759
ALI24495.1	mntR	XA26_06350	XA26_25620	Putative TRANSCRIPTIONAL REGULATORY PROTEIN.	MntR.	0.640

page 1 of 4

Network Stats

number of nodes:

3

number of edges:

2

average node degree:

1.33

avg. local clustering coefficient:

0.667

expected number of edges:

2

PPI enrichment p-value:

0.542

your network does not have 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:0006891

intra-Golgi vesicle-mediated transport

9 of 77

2.62

9.15

1.57e-19

GO:0006888

Endoplasmic reticulum to Golgi vesicle-mediated transport

9 of 179

2.26

6.94

8.64e-17

GO:0048193

Golgi vesicle transport

11 of 352

2.05

6.77

1.57e-19

GO:0006890

Retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum

7 of 89

2.45

6.38

6.67e-14

GO:0006886

Intracellular protein transport

9 of 801

1.6

3.24

9.36e-12

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005198

Structural molecule activity

7 of 884

1.45

1.91

2.08e-06

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030126

COPI vesicle coat

11 of 47

2.92

14.38

2.20e-29

GO:0000139

Golgi membrane

11 of 758

1.72

4.58

9.62e-18

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:30333

COPI-coated vesicle membrane

11 of 26

3.18

15.81

6.65e-31

CL:30335

COPI vesicle coat

10 of 19

3.28

14.9

1.02e-28

CL:30336

COPI-coated vesicle membrane

6 of 12

3.25

8.2

8.14e-16

CL:30361

Mixed, incl. Coatomer delta subunit, and Coatomer, alpha subunit, C-terminal

4 of 5

3.46

5.36

1.91e-10

CL:30350

Mixed, incl. Coatomer beta C-terminal region, and Coatomer subunit gamma, C-terminal

3 of 5

3.33

3.54

3.91e-07

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-6807878

COPI-mediated anterograde transport

11 of 210

2.27

8.85

1.12e-22

MAP-6811434

COPI-dependent Golgi-to-ER retrograde traffic

11 of 211

2.27

8.84

1.12e-22

MAP-8856688

Golgi-to-ER retrograde transport

11 of 248

2.2

8.35

2.23e-22

MAP-6811442

Intra-Golgi and retrograde Golgi-to-ER traffic

11 of 312

2.1

7.51

1.98e-21

MAP-199977

ER to Golgi Anterograde Transport

11 of 316

2.1

7.48

1.98e-21

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0030126

COPI vesicle coat

11 of 19

3.32

17.03

8.85e-33

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0931

ER-Golgi transport

8 of 39

2.87

9.72

1.28e-19

KW-0968

Cytoplasmic vesicle

7 of 49

2.71

7.79

4.63e-16

KW-0333

Golgi apparatus

8 of 162

2.25

6.45

1.96e-15

KW-0653

Protein transport

8 of 201

2.15

5.94

7.91e-15

KW-0963

Cytoplasm

8 of 396

1.86

4.31

1.30e-12

(more ...)

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF04053

Coatomer WD associated region

3 of 14

2.88

2.5

2.67e-05

PF14806

Coatomer beta subunit appendage platform

2 of 3

3.38

1.7

0.00086

PF07718

Coatomer beta C-terminal region

2 of 3

3.38

1.7

0.00086

PF06957

Coatomer (COPI) alpha subunit C-terminus

2 of 3

3.38

1.7

0.00086

PF00928

Adaptor complexes medium subunit family

2 of 13

2.74

1.34

0.0036

(more ...)

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR047312

Coatomer subunit alpha, WD Associated Region

3 of 3

3.55

3.13

2.26e-06

IPR016460

Coatomer beta subunit (COPB1)

3 of 5

3.33

3.04

3.17e-06

IPR011012

Longin-like domain superfamily

4 of 55

2.42

2.85

3.46e-06

IPR006692

Coatomer, WD associated region

3 of 17

2.8

2.45

3.22e-05

IPR002553

Clathrin/coatomer adaptor, adaptin-like, N-terminal

3 of 26

2.62

2.21

8.25e-05

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00320

WD40 repeats

3 of 324

1.52

0.65

0.0495

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