lclat1 protein (Callorhinchus milii) - STRING interaction network

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

lclat1

Lysocardiolipin acyltransferase 1-like protein. (375 aa)

Predicted Functional Partners:

Gpat2

0.939

crls1

0.936

LOC103179523

0.932

cds2

0.931

cds1

0.931

mboat1

0.928

gpat3

0.928

gpat4

0.928

plpp4

0.922

LOC103171817

0.922

Your Current Organism:

Callorhinchus milii

NCBI taxonomy Id: 7868
Other names: Australian ghost shark, C. milii, elephant fish, elephant shark, ghost shark, makorepe, plownose chimaera, reperepe

Send network to Cytoscape

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

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

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

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

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

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
Gpat2	LOC103179523	ENSCMIP00000021698	ENSCMIP00000042288	PlsC domain-containing protein.	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	0.925
Gpat2	gpat3	ENSCMIP00000021698	ENSCMIP00000031557	PlsC domain-containing protein.	PlsC domain-containing protein.	0.952
Gpat2	gpat4	ENSCMIP00000021698	ENSCMIP00000039912	PlsC domain-containing protein.	PlsC domain-containing protein.	0.952
Gpat2	lclat1	ENSCMIP00000021698	ENSCMIP00000044406	PlsC domain-containing protein.	Lysocardiolipin acyltransferase 1-like protein.	0.939
Gpat2	mboat1	ENSCMIP00000021698	ENSCMIP00000018497	PlsC domain-containing protein.	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	0.904
LOC103171817	LOC103179523	ENSCMIP00000014034	ENSCMIP00000042288	acidPPc domain-containing protein.	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	0.923
LOC103171817	cds1	ENSCMIP00000014034	ENSCMIP00000014470	acidPPc domain-containing protein.	Phosphatidate cytidylyltransferase; Provides CDP-diacylglycerol, an important precursor for the synthesis of phosphatidylinositol, phosphatidylglycerol, and cardiolipin.	0.907
LOC103171817	cds2	ENSCMIP00000014034	ENSCMIP00000013684	acidPPc domain-containing protein.	Phosphatidate cytidylyltransferase; Provides CDP-diacylglycerol, an important precursor for the synthesis of phosphatidylinositol, phosphatidylglycerol, and cardiolipin.	0.907
LOC103171817	crls1	ENSCMIP00000014034	ENSCMIP00000043949	acidPPc domain-containing protein.	Uncharacterized protein.	0.422
LOC103171817	lclat1	ENSCMIP00000014034	ENSCMIP00000044406	acidPPc domain-containing protein.	Lysocardiolipin acyltransferase 1-like protein.	0.922
LOC103171817	mboat1	ENSCMIP00000014034	ENSCMIP00000018497	acidPPc domain-containing protein.	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	0.904
LOC103171817	plpp4	ENSCMIP00000014034	ENSCMIP00000009961	acidPPc domain-containing protein.	acidPPc domain-containing protein.	0.901
LOC103179523	Gpat2	ENSCMIP00000042288	ENSCMIP00000021698	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	PlsC domain-containing protein.	0.925
LOC103179523	LOC103171817	ENSCMIP00000042288	ENSCMIP00000014034	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	acidPPc domain-containing protein.	0.923
LOC103179523	cds1	ENSCMIP00000042288	ENSCMIP00000014470	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	Phosphatidate cytidylyltransferase; Provides CDP-diacylglycerol, an important precursor for the synthesis of phosphatidylinositol, phosphatidylglycerol, and cardiolipin.	0.936
LOC103179523	cds2	ENSCMIP00000042288	ENSCMIP00000013684	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	Phosphatidate cytidylyltransferase; Provides CDP-diacylglycerol, an important precursor for the synthesis of phosphatidylinositol, phosphatidylglycerol, and cardiolipin.	0.936
LOC103179523	gpat3	ENSCMIP00000042288	ENSCMIP00000031557	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	PlsC domain-containing protein.	0.938
LOC103179523	gpat4	ENSCMIP00000042288	ENSCMIP00000039912	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	PlsC domain-containing protein.	0.938
LOC103179523	lclat1	ENSCMIP00000042288	ENSCMIP00000044406	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	Lysocardiolipin acyltransferase 1-like protein.	0.932
LOC103179523	mboat1	ENSCMIP00000042288	ENSCMIP00000018497	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	Uncharacterized protein; Belongs to the membrane-bound acyltransferase family.	0.905

page 1 of 4

Network Stats

number of nodes:

5

number of edges:

7

average node degree:

2.8

avg. local clustering coefficient:

0.9

expected number of edges:

4

PPI enrichment p-value:

0.148

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:0000209

Protein polyubiquitination

7 of 225

1.86

3.42

3.18e-09

GO:0016567

Protein ubiquitination

10 of 742

1.49

2.77

4.28e-11

GO:0070534

Protein K63-linked ubiquitination

3 of 33

2.32

1.95

0.00020

GO:0043161

Proteasome-mediated ubiquitin-dependent protein catabolic process

5 of 307

1.58

1.68

8.05e-05

GO:0019941

Modification-dependent protein catabolic process

6 of 608

1.36

1.46

6.65e-05

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0019787

Ubiquitin-like protein transferase activity

7 of 511

1.5

2.05

1.17e-06

GO:0004842

Ubiquitin-protein transferase activity

6 of 490

1.45

1.65

3.09e-05

GO:0061659

Ubiquitin-like protein ligase activity

4 of 362

1.41

0.86

0.0117

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:10284

Mixed, incl. Ubiquitin-like protein conjugating enzyme activity, and Protein sumoylation

6 of 103

2.13

3.69

1.34e-08

CL:10286

Mixed, incl. Ubiquitin conjugating enzyme activity, and Negative regulation of histone ubiquitination

5 of 60

2.28

3.6

5.82e-08

CL:10288

Mixed, incl. Ubiquitin conjugating enzyme activity, and Ubiquitin-dependent protein catabolic process via the N-end rule pathway

4 of 53

2.24

2.63

6.73e-06

CL:10289

Mixed, incl. Ubiquitin conjugating enzyme activity, and Ubiquitin-activating enzyme E1

3 of 42

2.22

1.67

0.00066

CL:10291

Ubiquitin conjugating enzyme activity, and Ubiquitin-activating enzyme E1

2 of 23

2.3

0.8

0.0346

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

dre04120

Ubiquitin mediated proteolysis

7 of 154

2.02

4.48

1.94e-11

dre04141

Protein processing in endoplasmic reticulum

3 of 197

1.55

1.02

0.0063

dre04137

Mitophagy - animal

2 of 87

1.72

0.74

0.0364

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

DRE-983168

Antigen processing: Ubiquitination & Proteasome degradation

7 of 303

1.73

2.92

1.92e-08

DRE-5696395

Formation of Incision Complex in GG-NER

3 of 42

2.22

1.81

0.00034

DRE-9708530

Regulation of BACH1 activity

2 of 10

2.66

1.45

0.0023

DRE-69052

Switching of origins to a post-replicative state

3 of 82

1.93

1.43

0.0014

DRE-975144

IRAK1 recruits IKK complex upon TLR7/8 or 9 stimulation

2 of 14

2.52

1.37

0.0030

(more ...)

WikiPathways

pathway

description

count in network

strength

signal

false discovery rate

WP324

Cytoplasmic ribosomal proteins

2 of 78

1.77

0.83

0.0243

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0035370

UBC13-UEV1A complex

2 of 2

3.36

1.55

0.0016

GOCC:1990234

Transferase complex

5 of 805

1.16

0.78

0.0088

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR013083

Zinc finger, RING/FYVE/PHD-type

5 of 371

1.49

1.21

0.0016

IPR019954

Ubiquitin conserved site

2 of 7

2.82

1.08

0.0113

IPR019956

Ubiquitin domain

2 of 9

2.71

1.04

0.0130

IPR011332

Zinc-binding ribosomal protein

2 of 9

2.71

1.04

0.0130

IPR001841

Zinc finger, RING-type

4 of 248

1.57

0.98

0.0082

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00212

Ubiquitin-conjugating enzyme E2, catalytic domain homologues

3 of 50

2.14

1.54

0.0011

SM00184

Ring finger

4 of 438

1.32

0.84

0.0108

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (30%) [HD]

Permalink

Network

Neighborhood

Experiments

Cooccurrence

Databases

Coexpression

Textmining

Fusion

© STRING Consortium 2024

Credits

Access

Info

About