H3GNS3_PHYRM protein (Phytophthora ramorum) - STRING interaction network

Nodes:

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query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

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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

Cooccurrence

Coexpression

Experiments

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[Homology]

Score

H3GNS3_PHYRM

tRNA pseudouridine synthase. (343 aa)

Predicted Functional Partners:

H3G7Y4_PHYRM

0.739

H3G970_PHYRM

0.739

H3G5H3_PHYRM

0.735

H3GMV0_PHYRM

0.686

H3GV90_PHYRM

0.686

H3G536_PHYRM

0.664

H3GIT0_PHYRM

0.647

H3GU14_PHYRM

0.609

H3H3D3_PHYRM

0.603

H3HAG5_PHYRM

0.603

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

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
H3G536_PHYRM	H3G5H3_PHYRM	H3G536	H3G5H3	Uncharacterized protein.	Uncharacterized protein; Belongs to the bacterial ribosomal protein bL17 family.	0.995
H3G536_PHYRM	H3G7Y4_PHYRM	H3G536	H3G7Y4	Uncharacterized protein.	TruB_N domain-containing protein.	0.426
H3G536_PHYRM	H3G970_PHYRM	H3G536	H3G970	Uncharacterized protein.	PUA domain-containing protein.	0.426
H3G536_PHYRM	H3GMV0_PHYRM	H3G536	H3GMV0	Uncharacterized protein.	RPOLD domain-containing protein.	0.944
H3G536_PHYRM	H3GNS3_PHYRM	H3G536	H3GNS3	Uncharacterized protein.	tRNA pseudouridine synthase.	0.664
H3G536_PHYRM	H3GV90_PHYRM	H3G536	H3GV90	Uncharacterized protein.	RPOLD domain-containing protein.	0.944
H3G536_PHYRM	H3H3D3_PHYRM	H3G536	H3H3D3	Uncharacterized protein.	PlsC domain-containing protein.	0.680
H3G536_PHYRM	H3HAG5_PHYRM	H3G536	H3HAG5	Uncharacterized protein.	Uncharacterized protein.	0.680
H3G5H3_PHYRM	H3G536_PHYRM	H3G5H3	H3G536	Uncharacterized protein; Belongs to the bacterial ribosomal protein bL17 family.	Uncharacterized protein.	0.995
H3G5H3_PHYRM	H3G7Y4_PHYRM	H3G5H3	H3G7Y4	Uncharacterized protein; Belongs to the bacterial ribosomal protein bL17 family.	TruB_N domain-containing protein.	0.746
H3G5H3_PHYRM	H3G970_PHYRM	H3G5H3	H3G970	Uncharacterized protein; Belongs to the bacterial ribosomal protein bL17 family.	PUA domain-containing protein.	0.746
H3G5H3_PHYRM	H3GMV0_PHYRM	H3G5H3	H3GMV0	Uncharacterized protein; Belongs to the bacterial ribosomal protein bL17 family.	RPOLD domain-containing protein.	0.951
H3G5H3_PHYRM	H3GNS3_PHYRM	H3G5H3	H3GNS3	Uncharacterized protein; Belongs to the bacterial ribosomal protein bL17 family.	tRNA pseudouridine synthase.	0.735
H3G5H3_PHYRM	H3GV90_PHYRM	H3G5H3	H3GV90	Uncharacterized protein; Belongs to the bacterial ribosomal protein bL17 family.	RPOLD domain-containing protein.	0.951
H3G7Y4_PHYRM	H3G536_PHYRM	H3G7Y4	H3G536	TruB_N domain-containing protein.	Uncharacterized protein.	0.426
H3G7Y4_PHYRM	H3G5H3_PHYRM	H3G7Y4	H3G5H3	TruB_N domain-containing protein.	Uncharacterized protein; Belongs to the bacterial ribosomal protein bL17 family.	0.746
H3G7Y4_PHYRM	H3GIT0_PHYRM	H3G7Y4	H3GIT0	TruB_N domain-containing protein.	WD_REPEATS_REGION domain-containing protein.	0.518
H3G7Y4_PHYRM	H3GMV0_PHYRM	H3G7Y4	H3GMV0	TruB_N domain-containing protein.	RPOLD domain-containing protein.	0.667
H3G7Y4_PHYRM	H3GNS3_PHYRM	H3G7Y4	H3GNS3	TruB_N domain-containing protein.	tRNA pseudouridine synthase.	0.739
H3G7Y4_PHYRM	H3GU14_PHYRM	H3G7Y4	H3GU14	TruB_N domain-containing protein.	Ribosome biogenesis protein WDR12 homolog; Required for maturation of ribosomal RNAs and formation of the large ribosomal subunit; Belongs to the WD repeat WDR12/YTM1 family.	0.825

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Network Stats

number of nodes:

11

number of edges:

35

average node degree:

6.36

avg. local clustering coefficient:

0.852

expected number of edges:

24

PPI enrichment p-value:

0.0189

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:0006260

DNA replication

4 of 38

1.26

0.89

0.0056

GO:0090304

Nucleic acid metabolic process

10 of 248

0.84

0.82

1.68e-05

GO:0006259

DNA metabolic process

6 of 128

0.9

0.67

0.0044

GO:0009059

Macromolecule biosynthetic process

6 of 166

0.79

0.53

0.0123

GO:0044260

Cellular macromolecule metabolic process

8 of 295

0.67

0.49

0.0044

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0140640

Catalytic activity, acting on a nucleic acid

9 of 154

1.0

1.08

4.70e-06

GO:0016779

Nucleotidyltransferase activity

4 of 31

1.34

1.06

0.0023

GO:0003677

DNA binding

9 of 185

0.92

0.94

1.13e-05

GO:0003697

Single-stranded DNA binding

2 of 4

1.93

0.85

0.0238

GO:0140097

Catalytic activity, acting on DNA

5 of 73

1.07

0.83

0.0027

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0061695

Transferase complex, transferring phosphorus-containing groups

3 of 10

1.71

1.19

0.0034

GO:0000428

DNA-directed RNA polymerase complex

2 of 5

1.84

0.96

0.0133

GO:0140535

Intracellular protein-containing complex

3 of 20

1.41

0.95

0.0068

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:556

Mixed, incl. DNA replication, and Nucleotide excision repair

5 of 29

1.47

1.44

0.00024

CL:551

Mixed, incl. Catalytic activity, acting on DNA, and DNA replication

6 of 68

1.18

1.13

0.00024

CL:323

tRNA aminoacylation

3 of 15

1.53

0.95

0.0094

CL:558

Mixed, incl. Nucleotide excision repair, and Mre11 nuclease, N-terminal metallophosphatase domain

3 of 18

1.46

0.87

0.0126

CL:215

RNA polymerase

2 of 5

1.84

0.77

0.0328

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03030

DNA replication

4 of 22

1.49

1.3

0.00083

map03440

Homologous recombination

4 of 31

1.34

1.12

0.0014

map03020

RNA polymerase

2 of 4

1.93

0.96

0.0146

map03430

Mismatch repair

3 of 27

1.28

0.78

0.0146

map03410

Base excision repair

2 of 10

1.53

0.7

0.0377

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0548

Nucleotidyltransferase

4 of 21

1.51

1.27

0.0011

KW-0235

DNA replication

3 of 14

1.56

1.02

0.0065

KW-0240

DNA-directed RNA polymerase

2 of 5

1.84

0.92

0.0163

KW-0239

DNA-directed DNA polymerase

2 of 5

1.84

0.92

0.0163

KW-0234

DNA repair

3 of 23

1.35

0.82

0.0136

(more ...)

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