H3HDT8_PHYRM protein (Phytophthora ramorum) - 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

H3HDT8_PHYRM

Uncharacterized protein. (564 aa)

Predicted Functional Partners:

H3GXV9_PHYRM

0.790

H3G6T4_PHYRM

0.665

H3GQ77_PHYRM

0.665

H3GME7_PHYRM

0.620

H3H0P2_PHYRM

0.620

H3H2G8_PHYRM

0.620

H3G5R2_PHYRM

0.612

H3G9A3_PHYRM

0.612

H3GBF3_PHYRM

0.525

H3GV86_PHYRM

0.525

Your Current Organism:

Phytophthora ramorum

NCBI taxonomy Id: 164328
Other names: BBA 9/95, CBS 101553, CPHST BL 55G, Ex-type CPHST BL 55G, P. ramorum, Phytophthora sp. ex Parrotia persica, Sudden oak death agent, WPC P10103, ramorum blight, sudden oak death

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
H3G5R2_PHYRM	H3GBF3_PHYRM	H3G5R2	H3GBF3	Protein kinase domain-containing protein.	CYCLIN domain-containing protein; Belongs to the cyclin family.	0.903
H3G5R2_PHYRM	H3GV86_PHYRM	H3G5R2	H3GV86	Protein kinase domain-containing protein.	Cyclin N-terminal domain-containing protein; Belongs to the cyclin family.	0.903
H3G5R2_PHYRM	H3HDT8_PHYRM	H3G5R2	H3HDT8	Protein kinase domain-containing protein.	Uncharacterized protein.	0.612
H3G6T4_PHYRM	H3GME7_PHYRM	H3G6T4	H3GME7	WD_REPEATS_REGION domain-containing protein.	CRC domain-containing protein.	0.852
H3G6T4_PHYRM	H3GXV9_PHYRM	H3G6T4	H3GXV9	WD_REPEATS_REGION domain-containing protein.	DIRP domain-containing protein.	0.973
H3G6T4_PHYRM	H3H0P2_PHYRM	H3G6T4	H3H0P2	WD_REPEATS_REGION domain-containing protein.	CRC domain-containing protein.	0.852
H3G6T4_PHYRM	H3H2G8_PHYRM	H3G6T4	H3H2G8	WD_REPEATS_REGION domain-containing protein.	CRC domain-containing protein.	0.852
H3G6T4_PHYRM	H3HDT8_PHYRM	H3G6T4	H3HDT8	WD_REPEATS_REGION domain-containing protein.	Uncharacterized protein.	0.665
H3G9A3_PHYRM	H3GBF3_PHYRM	H3G9A3	H3GBF3	Protein kinase domain-containing protein; Belongs to the protein kinase superfamily.	CYCLIN domain-containing protein; Belongs to the cyclin family.	0.903
H3G9A3_PHYRM	H3GV86_PHYRM	H3G9A3	H3GV86	Protein kinase domain-containing protein; Belongs to the protein kinase superfamily.	Cyclin N-terminal domain-containing protein; Belongs to the cyclin family.	0.903
H3G9A3_PHYRM	H3HDT8_PHYRM	H3G9A3	H3HDT8	Protein kinase domain-containing protein; Belongs to the protein kinase superfamily.	Uncharacterized protein.	0.612
H3GBF3_PHYRM	H3G5R2_PHYRM	H3GBF3	H3G5R2	CYCLIN domain-containing protein; Belongs to the cyclin family.	Protein kinase domain-containing protein.	0.903
H3GBF3_PHYRM	H3G9A3_PHYRM	H3GBF3	H3G9A3	CYCLIN domain-containing protein; Belongs to the cyclin family.	Protein kinase domain-containing protein; Belongs to the protein kinase superfamily.	0.903
H3GBF3_PHYRM	H3HDT8_PHYRM	H3GBF3	H3HDT8	CYCLIN domain-containing protein; Belongs to the cyclin family.	Uncharacterized protein.	0.525
H3GME7_PHYRM	H3G6T4_PHYRM	H3GME7	H3G6T4	CRC domain-containing protein.	WD_REPEATS_REGION domain-containing protein.	0.852
H3GME7_PHYRM	H3GQ77_PHYRM	H3GME7	H3GQ77	CRC domain-containing protein.	WD_REPEATS_REGION domain-containing protein.	0.852
H3GME7_PHYRM	H3GXV9_PHYRM	H3GME7	H3GXV9	CRC domain-containing protein.	DIRP domain-containing protein.	0.914
H3GME7_PHYRM	H3HDT8_PHYRM	H3GME7	H3HDT8	CRC domain-containing protein.	Uncharacterized protein.	0.620
H3GQ77_PHYRM	H3GME7_PHYRM	H3GQ77	H3GME7	WD_REPEATS_REGION domain-containing protein.	CRC domain-containing protein.	0.852
H3GQ77_PHYRM	H3GXV9_PHYRM	H3GQ77	H3GXV9	WD_REPEATS_REGION domain-containing protein.	DIRP domain-containing protein.	0.973

page 1 of 3

Network Stats

number of nodes:

10

number of edges:

16

average node degree:

3.2

avg. local clustering coefficient:

0.919

expected number of edges:

9

PPI enrichment p-value:

0.0286

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:0042147

Retrograde transport, endosome to Golgi

4 of 87

1.96

1.48

0.0014

GO:0072673

Lamellipodium morphogenesis

2 of 7

2.75

0.85

0.0326

GO:0034498

Early endosome to Golgi transport

2 of 9

2.64

0.8

0.0399

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005158

Insulin receptor binding

3 of 23

2.41

1.62

0.0012

GO:1990460

Leptin receptor binding

2 of 4

2.99

1.18

0.0086

GO:1990459

Transferrin receptor binding

2 of 11

2.55

0.94

0.0222

GO:0034452

Dynactin binding

2 of 12

2.52

0.94

0.0222

GO:0035091

Phosphatidylinositol binding

4 of 270

1.47

0.9

0.0118

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030905

Retromer, tubulation complex

4 of 4

3.29

4.72

4.78e-09

GO:0097422

Tubular endosome

2 of 5

2.9

1.48

0.0025

GO:0031901

Early endosome membrane

4 of 180

1.64

1.4

0.0010

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:11485546

(2001) A large family of endosome-localized proteins related to sorting nexin 1.

4 of 6

3.12

2.53

3.54e-05

PMID:24866125

(2014) Rapid mapping of interactions between Human SNX-BAR proteins measured in vitro by AlphaScreen and single-molecule spectroscopy.

4 of 9

2.94

2.49

4.01e-05

PMID:24735875

(2014) Going forward with retromer.

4 of 9

2.94

2.49

4.01e-05

PMID:18472259

(2008) Retromer.

4 of 9

2.94

2.49

4.01e-05

PMID:31576058

(2019) Molecular identification of a BAR domain-containing coat complex for endosomal recycling of transmembrane proteins.

5 of 38

2.41

2.42

3.54e-05

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:14014

Retromer, tubulation complex

4 of 5

3.2

4.37

1.92e-08

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

hsa04144

Endocytosis

4 of 241

1.51

1.24

0.0016

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0030905

Retromer, tubulation complex

4 of 4

3.29

4.69

5.38e-09

GOCC:0097422

Tubular endosome

2 of 5

2.9

1.39

0.0037

GOCC:0010008

Endosome membrane

4 of 330

1.38

0.91

0.0090

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0446

Lipid-binding

4 of 251

1.5

1.11

0.0036

KW-0967

Endosome

4 of 568

1.14

0.59

0.0431

KW-0653

Protein transport

4 of 617

1.11

0.57

0.0431

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF09325

Vps5 C terminal like

4 of 5

3.2

4.53

9.72e-09

PF03700

Sorting nexin, N-terminal domain

2 of 2

3.29

1.6

0.0016

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR015404

Sorting nexin/Vps5-like, C-terminal

4 of 5

3.2

4.26

3.02e-08

IPR001683

Phox homology

4 of 46

2.23

2.41

2.73e-05

IPR036871

PX domain superfamily

4 of 51

2.19

2.38

2.73e-05

IPR027267

AH/BAR domain superfamily

4 of 77

2.01

2.03

9.80e-05

IPR005329

Sorting nexin, N-terminal

2 of 2

3.29

1.55

0.0020

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00312

PhoX homologous domain, present in p47phox and p40phox.

3 of 42

2.15

1.59

0.0011

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (28%) [HD]

Permalink

Network

Cooccurrence

Experiments

Coexpression

Databases

Neighborhood

Textmining

Fusion

© STRING Consortium 2024

Credits

Access

Info

About