hisM protein (Sulfitobacter pseudonitzschiae)

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.

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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

hisM

Amino acid ABC transporter membrane protein 2, PAAT family. (268 aa)

Predicted Functional Partners:

artI

0.994

occP

0.961

artQ

0.937

glnQ-6

0.901

glnQ-2

0.893

tcyC

0.887

SHF89812.1

0.847

SHF92441.1

0.844

SHF95228.1

0.842

glnM

0.831

Your Current Organism:

Sulfitobacter pseudonitzschiae

NCBI taxonomy Id: 1402135
Other names: DSM 26824, MCCC 1A00686, S. pseudonitzschiae, Sulfitobacter pseudonitzschiae Hong et al. 2015, Sulfitobacter sp. H3, Sulfitobacter sp. MCCC 1A00686, strain H3

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... functional annotations:

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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
SHF89812.1	artQ	SAMN05444149_106128	SAMN05444149_10539	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter membrane protein 1, PAAT family.	0.765
SHF89812.1	glnM	SAMN05444149_106128	SAMN05444149_103280	Amino acid ABC transporter substrate-binding protein, PAAT family.	L-glutamine ABC transporter membrane protein.	0.678
SHF89812.1	glnQ-2	SAMN05444149_106128	SAMN05444149_103282	Amino acid ABC transporter substrate-binding protein, PAAT family.	L-glutamine ABC transporter ATP-binding protein.	0.844
SHF89812.1	glnQ-6	SAMN05444149_106128	SAMN05444149_106144	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter ATP-binding protein, PAAT family.	0.857
SHF89812.1	hisM	SAMN05444149_106128	SAMN05444149_10538	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter membrane protein 2, PAAT family.	0.847
SHF89812.1	occP	SAMN05444149_106128	SAMN05444149_10541	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter ATP-binding protein, PAAT family.	0.860
SHF89812.1	tcyC	SAMN05444149_106128	SAMN05444149_10688	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter ATP-binding protein, PAAT family.	0.843
SHF92441.1	artQ	SAMN05444149_106225	SAMN05444149_10539	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter membrane protein 1, PAAT family.	0.763
SHF92441.1	glnM	SAMN05444149_106225	SAMN05444149_103280	Amino acid ABC transporter substrate-binding protein, PAAT family.	L-glutamine ABC transporter membrane protein.	0.647
SHF92441.1	glnQ-2	SAMN05444149_106225	SAMN05444149_103282	Amino acid ABC transporter substrate-binding protein, PAAT family.	L-glutamine ABC transporter ATP-binding protein.	0.840
SHF92441.1	glnQ-6	SAMN05444149_106225	SAMN05444149_106144	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter ATP-binding protein, PAAT family.	0.853
SHF92441.1	hisM	SAMN05444149_106225	SAMN05444149_10538	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter membrane protein 2, PAAT family.	0.844
SHF92441.1	occP	SAMN05444149_106225	SAMN05444149_10541	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter ATP-binding protein, PAAT family.	0.860
SHF92441.1	tcyC	SAMN05444149_106225	SAMN05444149_10688	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter ATP-binding protein, PAAT family.	0.844
SHF95228.1	artQ	SAMN05444149_10731	SAMN05444149_10539	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter membrane protein 1, PAAT family.	0.673
SHF95228.1	glnM	SAMN05444149_10731	SAMN05444149_103280	Amino acid ABC transporter substrate-binding protein, PAAT family.	L-glutamine ABC transporter membrane protein.	0.514
SHF95228.1	glnQ-2	SAMN05444149_10731	SAMN05444149_103282	Amino acid ABC transporter substrate-binding protein, PAAT family.	L-glutamine ABC transporter ATP-binding protein.	0.808
SHF95228.1	glnQ-6	SAMN05444149_10731	SAMN05444149_106144	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter ATP-binding protein, PAAT family.	0.854
SHF95228.1	hisM	SAMN05444149_10731	SAMN05444149_10538	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter membrane protein 2, PAAT family.	0.842
SHF95228.1	occP	SAMN05444149_10731	SAMN05444149_10541	Amino acid ABC transporter substrate-binding protein, PAAT family.	Amino acid ABC transporter ATP-binding protein, PAAT family.	0.844

page 1 of 5

Network Stats

number of nodes:

11

number of edges:

48

average node degree:

8.73

avg. local clustering coefficient:

0.933

expected number of edges:

11

PPI enrichment p-value:

1.11e-16

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:0008299

Isoprenoid biosynthetic process

9 of 27

2.8

9.97

2.02e-20

GO:0016126

Sterol biosynthetic process

7 of 37

2.55

6.68

3.71e-14

GO:0046165

Alcohol biosynthetic process

8 of 87

2.24

6.02

3.00e-14

GO:1901617

Organic hydroxy compound biosynthetic process

9 of 132

2.11

5.91

3.32e-15

GO:0006695

Cholesterol biosynthetic process

6 of 27

2.62

5.84

3.98e-12

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0004659

Prenyltransferase activity

4 of 15

2.7

3.57

2.14e-07

GO:0016765

Transferase activity, transferring alkyl or aryl (other than methyl) groups

5 of 49

2.29

3.46

1.16e-07

GO:0004337

Geranyltranstransferase activity

2 of 3

3.1

1.53

0.0017

GO:0004161

Dimethylallyltranstransferase activity

2 of 3

3.1

1.53

0.0017

GO:0016709

Oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen

2 of 23

2.22

0.8

0.0333

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:1904423

Dehydrodolichyl diphosphate synthase complex

2 of 2

3.28

1.51

0.0019

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:5410

Isoprenoid biosynthetic process

8 of 15

3.0

9.98

1.04e-19

CL:5304

Steroid biosynthetic process, and Prenyltransferase activity

11 of 78

2.43

9.91

2.05e-23

CL:5413

Terpenoid backbone biosynthesis

7 of 8

3.22

9.37

4.27e-18

CL:5316

Steroid biosynthesis, and 3-beta hydroxysteroid dehydrogenase/isomerase family

3 of 21

2.43

2.07

0.00013

CL:5319

Steroid biosynthesis

2 of 8

2.68

1.32

0.0040

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

hcq00900

Terpenoid backbone biosynthesis

7 of 19

2.84

8.3

1.05e-16

hcq00100

Steroid biosynthesis

3 of 23

2.39

2.52

1.56e-05

hcq01100

Metabolic pathways

9 of 1363

1.1

1.38

9.08e-08

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-191273

Cholesterol biosynthesis

8 of 31

2.69

8.39

1.89e-17

MAP-8957322

Metabolism of steroids

8 of 165

1.96

4.58

2.55e-12

MAP-446199

Synthesis of Dolichyl-phosphate

3 of 6

2.98

2.97

3.80e-06

MAP-556833

Metabolism of lipids

8 of 948

1.2

1.48

1.53e-06

MAP-446219

Synthesis of substrates in N-glycan biosythesis

3 of 86

1.82

1.23

0.0034

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:1904423

Dehydrodolichyl diphosphate synthase complex

2 of 5

2.88

1.16

0.0080

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0756

Sterol biosynthesis

2 of 4

2.98

1.61

0.0012

KW-0752

Steroid biosynthesis

2 of 4

2.98

1.61

0.0012

KW-0808

Transferase

5 of 961

0.99

0.73

0.0051

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF01255

Putative undecaprenyl diphosphate synthase

2 of 2

3.28

1.37

0.0034

PF00348

Polyprenyl synthetase

2 of 4

2.98

1.31

0.0043

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR036424

Decaprenyl diphosphate synthase-like superfamily

2 of 2

3.28

1.1

0.0106

IPR033749

Polyprenyl synthetase, conserved site

2 of 3

3.1

1.1

0.0106

IPR000092

Polyprenyl synthetase

2 of 4

2.98

1.09

0.0106

IPR008949

Isoprenoid synthase domain superfamily

2 of 6

2.8

1.06

0.0123

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