nae1 protein (Larimichthys crocea) - 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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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

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Score

nae1

Amyloid beta precursor protein binding protein 1. (533 aa)

Predicted Functional Partners:

UBA3

0.989

LOC104933148

0.989

LOC104932910

0.970

LOC104931181

0.970

ube2f

0.949

ube2m

0.949

rpl10a

0.892

trip12

0.868

cul1

0.867

Senp8

0.843

Your Current Organism:

Larimichthys crocea

NCBI taxonomy Id: 215358
Other names: L. crocea, Pseudosciaena amblyceps, Pseudosciaena crocea, Sciaena crocea, croceine croaker, large yellow croaker

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
LOC104931181	LOC104933148	ENSLCRP00005019530	ENSLCRP00005022222	Ubiquitin-like protein Nedd8.	NEDD8-activating enzyme E1 catalytic subunit isoform X1.	0.921
LOC104931181	Senp8	ENSLCRP00005019530	ENSLCRP00005026526	Ubiquitin-like protein Nedd8.	Sentrin-specific protease 8.	0.973
LOC104931181	UBA3	ENSLCRP00005019530	ENSLCRP00005017184	Ubiquitin-like protein Nedd8.	NEDD8-activating enzyme E1 catalytic subunit.	0.921
LOC104931181	cul1	ENSLCRP00005019530	ENSLCRP00005037504	Ubiquitin-like protein Nedd8.	Cullin-1 isoform X1.	0.972
LOC104931181	nae1	ENSLCRP00005019530	ENSLCRP00005009038	Ubiquitin-like protein Nedd8.	Amyloid beta precursor protein binding protein 1.	0.970
LOC104931181	rpl10a	ENSLCRP00005019530	ENSLCRP00005048184	Ubiquitin-like protein Nedd8.	Large subunit ribosomal protein L10Ae.	0.596
LOC104931181	trip12	ENSLCRP00005019530	ENSLCRP00005044842	Ubiquitin-like protein Nedd8.	E3 ubiquitin-protein ligase TRIP12 isoform X1.	0.853
LOC104931181	ube2f	ENSLCRP00005019530	ENSLCRP00005021778	Ubiquitin-like protein Nedd8.	Ubiquitin-conjugating enzyme E2 F.	0.908
LOC104931181	ube2m	ENSLCRP00005019530	ENSLCRP00005060252	Ubiquitin-like protein Nedd8.	Ubiquitin conjugating enzyme E2 M.	0.908
LOC104932910	LOC104933148	ENSLCRP00005013054	ENSLCRP00005022222	NEDD8.	NEDD8-activating enzyme E1 catalytic subunit isoform X1.	0.921
LOC104932910	Senp8	ENSLCRP00005013054	ENSLCRP00005026526	NEDD8.	Sentrin-specific protease 8.	0.973
LOC104932910	UBA3	ENSLCRP00005013054	ENSLCRP00005017184	NEDD8.	NEDD8-activating enzyme E1 catalytic subunit.	0.921
LOC104932910	cul1	ENSLCRP00005013054	ENSLCRP00005037504	NEDD8.	Cullin-1 isoform X1.	0.972
LOC104932910	nae1	ENSLCRP00005013054	ENSLCRP00005009038	NEDD8.	Amyloid beta precursor protein binding protein 1.	0.970
LOC104932910	rpl10a	ENSLCRP00005013054	ENSLCRP00005048184	NEDD8.	Large subunit ribosomal protein L10Ae.	0.596
LOC104932910	trip12	ENSLCRP00005013054	ENSLCRP00005044842	NEDD8.	E3 ubiquitin-protein ligase TRIP12 isoform X1.	0.853
LOC104932910	ube2f	ENSLCRP00005013054	ENSLCRP00005021778	NEDD8.	Ubiquitin-conjugating enzyme E2 F.	0.908
LOC104932910	ube2m	ENSLCRP00005013054	ENSLCRP00005060252	NEDD8.	Ubiquitin conjugating enzyme E2 M.	0.908
LOC104933148	LOC104931181	ENSLCRP00005022222	ENSLCRP00005019530	NEDD8-activating enzyme E1 catalytic subunit isoform X1.	Ubiquitin-like protein Nedd8.	0.921
LOC104933148	LOC104932910	ENSLCRP00005022222	ENSLCRP00005013054	NEDD8-activating enzyme E1 catalytic subunit isoform X1.	NEDD8.	0.921

page 1 of 5

Network Stats

number of nodes:

11

number of edges:

25

average node degree:

4.55

avg. local clustering coefficient:

0.676

expected number of edges:

16

PPI enrichment p-value:

0.0223

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:0006366

Transcription by RNA polymerase II

6 of 179

1.86

2.89

1.81e-07

GO:0006351

Transcription, DNA-templated

7 of 313

1.69

2.59

1.81e-07

GO:0006367

Transcription initiation from RNA polymerase II promoter

3 of 33

2.3

1.83

0.00034

GO:0045948

Positive regulation of translational initiation

2 of 19

2.36

1.0

0.0148

GO:0030150

Protein import into mitochondrial matrix

2 of 23

2.28

0.92

0.0199

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003899

DNA-directed 5-3 RNA polymerase activity

4 of 21

2.62

3.24

8.12e-07

GO:0031369

Translation initiation factor binding

2 of 17

2.41

1.0

0.0146

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005665

RNA polymerase II, core complex

5 of 14

2.89

5.66

2.56e-11

GO:0055029

Nuclear DNA-directed RNA polymerase complex

7 of 97

2.2

5.0

9.66e-12

GO:0016591

RNA polymerase II, holoenzyme

6 of 71

2.27

4.73

1.04e-10

GO:0005744

TIM23 mitochondrial import inner membrane translocase complex

2 of 9

2.69

1.65

0.00095

GO:0005654

Nucleoplasm

7 of 2180

0.85

0.7

0.0010

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:9495

RNA polymerase II, core complex

5 of 8

3.13

5.64

4.38e-11

CL:9468

RNA Polymerase II Pre-transcription Events, and RNA Polymerase III Transcription Initiation From Type 1 Promoter

7 of 181

1.93

3.78

6.36e-10

CL:9476

RNA Polymerase II Pre-transcription Events, and Transcription elongation factor complex

6 of 126

2.02

3.59

8.63e-09

CL:32588

Mitochondrial protein import, and Protein insertion into mitochondrial inner membrane

3 of 38

2.24

1.82

0.00034

CL:32638

TIM23 mitochondrial import inner membrane translocase complex

2 of 5

2.94

1.54

0.0016

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03020

RNA polymerase

6 of 54

2.38

5.25

1.69e-11

map04623

Cytosolic DNA-sensing pathway

2 of 68

1.81

0.71

0.0443

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-6803529

FGFR2 alternative splicing

6 of 27

2.69

5.95

3.21e-12

MAP-77075

RNA Pol II CTD phosphorylation and interaction with CE

6 of 32

2.61

5.83

4.00e-12

MAP-72086

mRNA Capping

6 of 33

2.6

5.81

4.00e-12

MAP-113418

Formation of the Early Elongation Complex

6 of 36

2.56

5.77

4.00e-12

MAP-76042

RNA Polymerase II Transcription Initiation And Promoter Clearance

6 of 52

2.4

5.21

2.34e-11

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0000428

DNA-directed RNA polymerase complex

7 of 94

2.21

5.03

9.54e-12

GOCC:0055029

Nuclear DNA-directed RNA polymerase complex

6 of 81

2.21

4.39

4.47e-10

GOCC:0005665

RNA polymerase II, core complex

3 of 8

2.91

2.97

3.65e-06

GOCC:0016591

RNA polymerase II, holoenzyme

4 of 59

2.17

2.71

3.65e-06

GOCC:0005744

TIM23 mitochondrial import inner membrane translocase complex

2 of 9

2.69

1.55

0.0015

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0240

DNA-directed RNA polymerase

6 of 30

2.64

6.1

1.23e-12

KW-0804

Transcription

7 of 517

1.47

2.18

1.26e-07

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00662

RNA polymerases D

2 of 2

3.34

1.69

0.00092

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