vim protein (Poecilia reticulata) - STRING interaction network

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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second shell of interactors

Node Content

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proteins of unknown 3D structure

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a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

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Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

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Score

vim

Vimentin like; Belongs to the intermediate filament family. (454 aa)

Predicted Functional Partners:

banf1

0.560

LOC103477399

0.560

LOC103472994

0.520

s100b

0.510

casp7

0.509

dcx

0.485

tcap

0.482

sun2

0.480

sun1

0.480

LOC103461139

0.479

Your Current Organism:

Poecilia reticulata

NCBI taxonomy Id: 8081
Other names: Acanthophacelus reticulata, P. reticulata, Poecilia (Acanthophacelus) reticulata, Poecilia latipinna reticulata, guppy

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
LOC103461139	LOC103477399	ENSPREP00000022454	ENSPREP00000019489	RNA binding motif protein 39b.	Uncharacterized protein.	0.708
LOC103461139	banf1	ENSPREP00000022454	ENSPREP00000017597	RNA binding motif protein 39b.	Barrier to autointegration factor 1.	0.708
LOC103461139	vim	ENSPREP00000022454	ENSPREP00000024172	RNA binding motif protein 39b.	Vimentin like; Belongs to the intermediate filament family.	0.479
LOC103472994	vim	ENSPREP00000012164	ENSPREP00000024172	Elongation factor 1-alpha; This protein promotes the GTP-dependent binding of aminoacyl- tRNA to the A-site of ribosomes during protein biosynthesis.	Vimentin like; Belongs to the intermediate filament family.	0.520
LOC103477399	LOC103461139	ENSPREP00000019489	ENSPREP00000022454	Uncharacterized protein.	RNA binding motif protein 39b.	0.708
LOC103477399	vim	ENSPREP00000019489	ENSPREP00000024172	Uncharacterized protein.	Vimentin like; Belongs to the intermediate filament family.	0.560
banf1	LOC103461139	ENSPREP00000017597	ENSPREP00000022454	Barrier to autointegration factor 1.	RNA binding motif protein 39b.	0.708
banf1	vim	ENSPREP00000017597	ENSPREP00000024172	Barrier to autointegration factor 1.	Vimentin like; Belongs to the intermediate filament family.	0.560
casp7	vim	ENSPREP00000033366	ENSPREP00000024172	Caspase 7, apoptosis-related cysteine peptidase; Belongs to the peptidase C14A family.	Vimentin like; Belongs to the intermediate filament family.	0.509
dcx	vim	ENSPREP00000034076	ENSPREP00000024172	Uncharacterized protein.	Vimentin like; Belongs to the intermediate filament family.	0.485
s100b	vim	ENSPREP00000031998	ENSPREP00000024172	S100 calcium binding protein, beta (neural); Belongs to the S-100 family.	Vimentin like; Belongs to the intermediate filament family.	0.510
sun1	vim	ENSPREP00000010506	ENSPREP00000024172	Sad1 and UNC84 domain containing 1.	Vimentin like; Belongs to the intermediate filament family.	0.480
sun2	vim	ENSPREP00000000229	ENSPREP00000024172	SUN domain-containing protein.	Vimentin like; Belongs to the intermediate filament family.	0.480
tcap	vim	ENSPREP00000016351	ENSPREP00000024172	Titin-cap (telethonin).	Vimentin like; Belongs to the intermediate filament family.	0.482
vim	LOC103461139	ENSPREP00000024172	ENSPREP00000022454	Vimentin like; Belongs to the intermediate filament family.	RNA binding motif protein 39b.	0.479
vim	LOC103472994	ENSPREP00000024172	ENSPREP00000012164	Vimentin like; Belongs to the intermediate filament family.	Elongation factor 1-alpha; This protein promotes the GTP-dependent binding of aminoacyl- tRNA to the A-site of ribosomes during protein biosynthesis.	0.520
vim	LOC103477399	ENSPREP00000024172	ENSPREP00000019489	Vimentin like; Belongs to the intermediate filament family.	Uncharacterized protein.	0.560
vim	banf1	ENSPREP00000024172	ENSPREP00000017597	Vimentin like; Belongs to the intermediate filament family.	Barrier to autointegration factor 1.	0.560
vim	casp7	ENSPREP00000024172	ENSPREP00000033366	Vimentin like; Belongs to the intermediate filament family.	Caspase 7, apoptosis-related cysteine peptidase; Belongs to the peptidase C14A family.	0.509
vim	dcx	ENSPREP00000024172	ENSPREP00000034076	Vimentin like; Belongs to the intermediate filament family.	Uncharacterized protein.	0.485

page 1 of 2

Network Stats

number of nodes:

10

number of edges:

21

average node degree:

4.2

avg. local clustering coefficient:

0.873

expected number of edges:

9

PPI enrichment p-value:

0.000652

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:0040019

Positive regulation of embryonic development

2 of 6

2.88

0.81

0.0391

GO:0045039

Protein insertion into mitochondrial inner membrane

2 of 8

2.76

0.8

0.0391

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005743

Mitochondrial inner membrane

4 of 419

1.34

0.72

0.0279

GO:0098798

Mitochondrial protein-containing complex

3 of 267

1.41

0.65

0.0463

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:6513

Mixed, incl. Tim10-like, and Mitochondrial intermembrane space import and assembly protein 40

4 of 17

2.73

3.46

5.49e-07

CL:6519

TIM22 mitochondrial import inner membrane insertion complex, and Tim10-like

3 of 5

3.14

2.98

5.61e-06

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-1268020

Mitochondrial protein import

3 of 47

2.16

1.47

0.0019

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0042719

Mitochondrial intermembrane space protein transporter complex

2 of 5

2.96

1.46

0.0028

GOCC:0098798

Mitochondrial protein complex

4 of 228

1.6

1.2

0.0028

GOCC:0005740

Mitochondrial envelope

4 of 383

1.38

1.05

0.0034

GOCC:0031967

Organelle envelope

5 of 547

1.32

1.03

0.0028

GOCC:0071013

Catalytic step 2 spliceosome

2 of 37

2.09

0.92

0.0215

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0811

Translocation

2 of 20

2.36

1.05

0.0132

KW-0496

Mitochondrion

3 of 160

1.63

0.94

0.0132

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF10312

Conserved mid region of cactin

2 of 2

3.36

1.51

0.0023

PF04621

PEA3 subfamily ETS-domain transcription factor N terminal domain

2 of 4

3.06

1.45

0.0029

PF02953

Tim10/DDP family zinc finger

2 of 6

2.88

1.39

0.0036

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR019134

Splicing factor Cactin, C-terminal

2 of 2

3.36

1.23

0.0073

IPR018816

Splicing factor cactin, central domain

2 of 2

3.36

1.23

0.0073

IPR006715

PEA3-type ETS-domain transcription factor, N-terminal

2 of 4

3.06

1.22

0.0073

IPR035427

Tim10-like domain superfamily

2 of 6

2.88

1.18

0.0085

IPR004217

Tim10-like

2 of 6

2.88

1.18

0.0085

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM01050

Cactus-binding C-terminus of cactin protein

2 of 3

3.18

1.65

0.0013

SM00413

Erythroblast transformation specific domain

2 of 32

2.15

0.8

0.0372

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