OGJ97045.1 protein (Raymondbacteria bacterium RIFOXYC2FULL5021)

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

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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

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[Homology]

Score

OGJ97045.1

Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+. (410 aa)

Predicted Functional Partners:

OGJ96603.1

0.998

OGJ96075.1

0.994

OGJ99420.1

0.993

OGJ96606.1

0.992

OGJ96613.1

0.992

OGJ96625.1

0.991

OGJ97286.1

0.983

OGJ97309.1

0.982

OGJ99376.1

0.981

OGJ96627.1

0.976

Your Current Organism:

Raymondbacteria bacterium RIFOXYC2FULL5021

NCBI taxonomy Id: 1817889
Other names: C. Raymondbacteria bacterium RIFOXYC2_FULL_50_21, Candidatus Raymondbacteria bacterium RIFOXYC2_FULL_50_21

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
OGJ96075.1	OGJ96603.1	A2453_08310	A2453_06330	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.999
OGJ96075.1	OGJ96606.1	A2453_08310	A2453_06345	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.986
OGJ96075.1	OGJ96613.1	A2453_08310	A2453_06390	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.998
OGJ96075.1	OGJ96625.1	A2453_08310	A2453_06455	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.993
OGJ96075.1	OGJ96627.1	A2453_08310	A2453_06465	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.994
OGJ96075.1	OGJ97045.1	A2453_08310	A2453_04140	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.994
OGJ96075.1	OGJ97286.1	A2453_08310	A2453_01490	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.984
OGJ96075.1	OGJ97309.1	A2453_08310	A2453_01580	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.780
OGJ96075.1	OGJ99376.1	A2453_08310	A2453_13695	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.991
OGJ96075.1	OGJ99420.1	A2453_08310	A2453_05385	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.956
OGJ96603.1	OGJ96075.1	A2453_06330	A2453_08310	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.999
OGJ96603.1	OGJ96606.1	A2453_06330	A2453_06345	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.999
OGJ96603.1	OGJ96613.1	A2453_06330	A2453_06390	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.998
OGJ96603.1	OGJ96625.1	A2453_06330	A2453_06455	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.999
OGJ96603.1	OGJ96627.1	A2453_06330	A2453_06465	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.998
OGJ96603.1	OGJ97045.1	A2453_06330	A2453_04140	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.998
OGJ96603.1	OGJ97286.1	A2453_06330	A2453_01490	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.998
OGJ96603.1	OGJ97309.1	A2453_06330	A2453_01580	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.998
OGJ96603.1	OGJ99376.1	A2453_06330	A2453_13695	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.999
OGJ96603.1	OGJ99420.1	A2453_06330	A2453_05385	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.997

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Network Stats

number of nodes:

11

number of edges:

20

average node degree:

3.64

avg. local clustering coefficient:

0.829

expected number of edges:

16

PPI enrichment p-value:

0.19

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:0001523

Retinoid metabolic process

8 of 64

2.4

6.57

1.20e-14

GO:0034308

Primary alcohol metabolic process

7 of 69

2.31

5.46

2.40e-12

GO:0034754

Cellular hormone metabolic process

6 of 96

2.1

3.84

4.01e-09

GO:0042572

Retinol metabolic process

5 of 49

2.31

3.79

2.31e-08

GO:0120254

Olefinic compound metabolic process

6 of 107

2.05

3.68

6.68e-09

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0001972

Retinoic acid binding

3 of 8

2.87

2.72

1.03e-05

GO:0019841

Retinol binding

3 of 16

2.57

2.32

4.83e-05

GO:0016616

Oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor

5 of 150

1.82

2.24

9.85e-06

GO:0004024

Alcohol dehydrogenase activity, zinc-dependent

2 of 4

3.0

1.68

0.00091

GO:0016491

Oxidoreductase activity

8 of 855

1.27

1.58

2.21e-06

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:4799

Retinol metabolism

10 of 20

3.0

12.87

1.14e-25

CL:4790

Retinol metabolism

11 of 45

2.69

12.06

5.15e-26

CL:4803

Mixed, incl. Response to vitamin A, and NAD(P)-binding Rossmann-like domain

8 of 10

3.2

10.86

5.30e-21

CL:4806

Response to vitamin A, and NAD(P)-binding Rossmann-like domain

4 of 5

3.2

4.64

3.49e-09

CL:4827

Mixed, incl. Beta-carotene metabolic process, and Retinal dehydrogenase activity

2 of 6

2.82

1.3

0.0044

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

kmr00830

Retinol metabolism

11 of 50

2.64

12.27

4.94e-27

kmr00982

Drug metabolism - cytochrome P450

2 of 33

2.08

1.03

0.0112

kmr00980

Metabolism of xenobiotics by cytochrome P450

2 of 39

2.01

1.02

0.0112

kmr00350

Tyrosine metabolism

2 of 39

2.01

1.02

0.0112

kmr00071

Fatty acid degradation

2 of 47

1.93

1.01

0.0112

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-5365859

RA biosynthesis pathway

5 of 37

2.43

3.98

1.54e-08

MAP-5362517

Signaling by Retinoic Acid

5 of 72

2.14

3.25

1.77e-07

MAP-2187338

Visual phototransduction

4 of 148

1.73

1.62

0.00029

MAP-975634

Retinoid metabolism and transport

3 of 52

2.06

1.62

0.00067

MAP-211945

Phase I - Functionalization of compounds

4 of 153

1.72

1.61

0.00029

(more ...)

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF04970

Lecithin retinol acyltransferase

3 of 11

2.73

2.24

7.74e-05

PF08659

KR domain

3 of 55

2.04

1.29

0.0032

PF00107

Zinc-binding dehydrogenase

2 of 8

2.7

1.16

0.0078

PF08240

Alcohol dehydrogenase GroES-like domain

2 of 17

2.37

0.9

0.0221

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR042288

Lecithin retinol acyltransferase

3 of 4

3.17

2.56

2.34e-05

IPR007053

LRAT domain

3 of 12

2.7

2.15

0.00011

IPR036291

NAD(P)-binding domain superfamily

5 of 200

1.7

1.75

0.00011

IPR002328

Alcohol dehydrogenase, zinc-type, conserved site

2 of 7

2.76

1.03

0.0135

IPR002347

Short-chain dehydrogenase/reductase SDR

3 of 77

1.89

0.97

0.0135

(more ...)

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