LOC103709765 protein (Phoenix dactylifera) - 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

LOC103709765

DEAD-box ATP-dependent RNA helicase 39. (607 aa)

Predicted Functional Partners:

LOC103715924

0.804

LOC103719620

0.722

LOC103702450

0.720

LOC103721398

0.712

LOC103713132

0.672

LOC103702378

0.662

LOC103702648

0.658

LOC103713379

0.658

LOC103696901

0.653

LOC103721552

0.647

Your Current Organism:

Phoenix dactylifera

NCBI taxonomy Id: 42345
Other names: P. dactylifera, Phoenix dactylifera L., date palm

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
LOC103696901	LOC103709765	A0A2H3X1D1	A0A2H3Y4Z1	Replication stress response regulator SDE2.	DEAD-box ATP-dependent RNA helicase 39.	0.653
LOC103696901	LOC103721552	A0A2H3X1D1	A0A2H3Z8J4	Replication stress response regulator SDE2.	KRR1 small subunit processome component; Required for 40S ribosome biogenesis. Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.	0.403
LOC103702378	LOC103702450	A0A2H3XFG1	A0A2H3XFR8	rRNA adenine N(6)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. rRNA adenine N(6)-methyltransferase family.	Probable rRNA-processing protein EBP2 homolog.	0.682
LOC103702378	LOC103702648	A0A2H3XFG1	A0A2H3XGQ5	rRNA adenine N(6)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. rRNA adenine N(6)-methyltransferase family.	DAR GTPase 3, chloroplastic isoform X1.	0.728
LOC103702378	LOC103709765	A0A2H3XFG1	A0A2H3Y4Z1	rRNA adenine N(6)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. rRNA adenine N(6)-methyltransferase family.	DEAD-box ATP-dependent RNA helicase 39.	0.662
LOC103702378	LOC103713132	A0A2H3XFG1	A0A2H3YFT9	rRNA adenine N(6)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. rRNA adenine N(6)-methyltransferase family.	DExH-box ATP-dependent RNA helicase DExH10.	0.682
LOC103702378	LOC103713379	A0A2H3XFG1	A0A2H3YGZ8	rRNA adenine N(6)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. rRNA adenine N(6)-methyltransferase family.	Guanine nucleotide-binding protein-like NSN1.	0.728
LOC103702378	LOC103715924	A0A2H3XFG1	A0A2H3YPJ5	rRNA adenine N(6)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. rRNA adenine N(6)-methyltransferase family.	Pescadillo homolog; Required for maturation of ribosomal RNAs and formation of the large ribosomal subunit; Belongs to the pescadillo family.	0.682
LOC103702378	LOC103721398	A0A2H3XFG1	A0A2H3Z7W1	rRNA adenine N(6)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. rRNA adenine N(6)-methyltransferase family.	Ribosome biogenesis protein BOP1 homolog; Required for maturation of ribosomal RNAs and formation of the large ribosomal subunit; Belongs to the WD repeat BOP1/ERB1 family.	0.618
LOC103702378	LOC103721552	A0A2H3XFG1	A0A2H3Z8J4	rRNA adenine N(6)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. rRNA adenine N(6)-methyltransferase family.	KRR1 small subunit processome component; Required for 40S ribosome biogenesis. Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.	0.772
LOC103702450	LOC103702378	A0A2H3XFR8	A0A2H3XFG1	Probable rRNA-processing protein EBP2 homolog.	rRNA adenine N(6)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. rRNA adenine N(6)-methyltransferase family.	0.682
LOC103702450	LOC103702648	A0A2H3XFR8	A0A2H3XGQ5	Probable rRNA-processing protein EBP2 homolog.	DAR GTPase 3, chloroplastic isoform X1.	0.996
LOC103702450	LOC103709765	A0A2H3XFR8	A0A2H3Y4Z1	Probable rRNA-processing protein EBP2 homolog.	DEAD-box ATP-dependent RNA helicase 39.	0.720
LOC103702450	LOC103713132	A0A2H3XFR8	A0A2H3YFT9	Probable rRNA-processing protein EBP2 homolog.	DExH-box ATP-dependent RNA helicase DExH10.	0.722
LOC103702450	LOC103713379	A0A2H3XFR8	A0A2H3YGZ8	Probable rRNA-processing protein EBP2 homolog.	Guanine nucleotide-binding protein-like NSN1.	0.996
LOC103702450	LOC103715924	A0A2H3XFR8	A0A2H3YPJ5	Probable rRNA-processing protein EBP2 homolog.	Pescadillo homolog; Required for maturation of ribosomal RNAs and formation of the large ribosomal subunit; Belongs to the pescadillo family.	0.998
LOC103702450	LOC103721398	A0A2H3XFR8	A0A2H3Z7W1	Probable rRNA-processing protein EBP2 homolog.	Ribosome biogenesis protein BOP1 homolog; Required for maturation of ribosomal RNAs and formation of the large ribosomal subunit; Belongs to the WD repeat BOP1/ERB1 family.	0.998
LOC103702450	LOC103721552	A0A2H3XFR8	A0A2H3Z8J4	Probable rRNA-processing protein EBP2 homolog.	KRR1 small subunit processome component; Required for 40S ribosome biogenesis. Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.	0.972
LOC103702648	LOC103702378	A0A2H3XGQ5	A0A2H3XFG1	DAR GTPase 3, chloroplastic isoform X1.	rRNA adenine N(6)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. rRNA adenine N(6)-methyltransferase family.	0.728
LOC103702648	LOC103702450	A0A2H3XGQ5	A0A2H3XFR8	DAR GTPase 3, chloroplastic isoform X1.	Probable rRNA-processing protein EBP2 homolog.	0.996

page 1 of 4

Network Stats

number of nodes:

11

number of edges:

17

average node degree:

3.09

avg. local clustering coefficient:

0.923

expected number of edges:

11

PPI enrichment p-value:

0.0526

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:0042273

Ribosomal large subunit biogenesis

7 of 129

1.95

3.9

3.64e-10

GO:0000463

Maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)

5 of 48

2.23

3.62

3.87e-08

GO:0042254

Ribosome biogenesis

11 of 536

1.52

3.19

8.87e-14

GO:0030490

Maturation of SSU-rRNA

6 of 125

1.89

3.19

3.08e-08

GO:0006364

rRNA processing

9 of 400

1.56

2.93

1.24e-10

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030515

snoRNA binding

4 of 45

2.16

2.38

1.87e-05

GO:0003723

RNA binding

9 of 1125

1.11

1.31

1.81e-06

GO:0042134

rRNA primary transcript binding

2 of 12

2.43

0.95

0.0181

GO:0003724

RNA helicase activity

3 of 113

1.64

0.84

0.0196

GO:0005488

Binding

11 of 7915

0.35

0.26

0.0422

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030689

Noc complex

4 of 8

2.91

4.46

5.53e-09

GO:0030684

Preribosome

8 of 178

1.86

4.12

9.52e-12

GO:0005730

Nucleolus

11 of 476

1.58

3.55

5.47e-15

GO:0030686

90S preribosome

4 of 56

2.07

2.64

3.42e-06

GO:0030687

Preribosome, large subunit precursor

4 of 59

2.04

2.6

3.82e-06

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:9923

Maturation of SSU-rRNA, and Small-subunit processome

6 of 131

1.87

2.85

2.52e-07

CL:9931

Small-subunit processome, and Endonucleolytic cleavage to generate mature 5-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)

5 of 91

1.95

2.57

2.81e-06

CL:10188

Preribosome, large subunit precursor, and Maturation of LSU-rRNA

5 of 95

1.93

2.56

2.81e-06

CL:10205

Preribosome, large subunit precursor, and Nop2p

4 of 47

2.14

2.55

7.42e-06

CL:9940

Small-subunit processome

4 of 74

1.94

2.19

2.59e-05

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-6791226

Major pathway of rRNA processing in the nucleolus and cytosol

8 of 257

1.7

3.28

3.28e-10

MAP-8868773

rRNA processing in the nucleus and cytosol

8 of 263

1.69

3.25

3.28e-10

MAP-72312

rRNA processing

8 of 272

1.68

3.21

3.28e-10

MAP-8953854

Metabolism of RNA

8 of 1097

1.07

1.19

7.15e-06

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0030684

Preribosome

8 of 153

1.93

4.35

7.47e-12

GOCC:0030686

90S preribosome

6 of 62

2.2

4.29

7.04e-10

GOCC:0030689

Noc complex

4 of 12

2.73

3.86

6.02e-08

GOCC:0030691

Noc2p-Noc3p complex

2 of 4

2.91

1.63

0.0011

GOCC:0030690

Noc1p-Noc2p complex

2 of 4

2.91

1.63

0.0011

(more ...)

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF06732

Pescadillo N-terminus

2 of 2

3.21

1.25

0.0057

PF04147

Nop14-like family

2 of 2

3.21

1.25

0.0057

PF03715

Noc2p family

2 of 2

3.21

1.25

0.0057

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR045209

rRNA biogenesis protein Rrp5

2 of 2

3.21

1.01

0.0151

IPR010613

Pescadillo

2 of 2

3.21

1.01

0.0151

IPR007276

Nucleolar protein 14

2 of 2

3.21

1.01

0.0151

IPR005343

Nucleolar complex protein 2

2 of 2

3.21

1.01

0.0151

IPR011545

DEAD/DEAH box helicase domain

3 of 88

1.74

0.78

0.0299

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00316

Ribosomal protein S1-like RNA-binding domain

2 of 14

2.37

0.9

0.0228

SM00386

HAT (Half-A-TPR) repeats

2 of 16

2.31

0.89

0.0228

SM00490

Helicase superfamily c-terminal domain

3 of 149

1.52

0.79

0.0228

SM00487

DEAD-like helicases superfamily

3 of 152

1.51

0.78

0.0228

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (22%) [HD]

Permalink

Network

Neighborhood

Experiments

Fusion

Databases

Cooccurrence

Textmining

Coexpression

© STRING Consortium 2024

Credits

Access

Info

About