ANB38177.1 protein (Rhodovulum sulfidophilum)

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

Experiments

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[Homology]

Score

ANB38177.1

Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+. (247 aa)

Predicted Functional Partners:

ModB1

0.996

ANB38176.1

0.995

ModC1

0.985

ModA1

0.978

ANB38181.1

0.847

ANB38175.1

0.795

ANB38174.1

0.793

ANB39589.1

0.708

NifB2

0.695

MopB

0.676

Your Current Organism:

Rhodovulum sulfidophilum

NCBI taxonomy Id: 35806
Other names: ATCC 35886, LMG 5201, LMG:5201, R. sulfidophilum, Rhodobacter sulfidiphilus, Rhodobacter sulfidophilus, Rhodopseudomonas sulfidophila, strain Hansen W4

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ANB38174.1	ANB38175.1	A6024_09700	A6024_09705	ModD protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.781
ANB38174.1	ANB38176.1	A6024_09700	A6024_09710	ModD protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.781
ANB38174.1	ANB38177.1	A6024_09700	A6024_09715	ModD protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.793
ANB38174.1	ANB38181.1	A6024_09700	A6024_09735	ModD protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Molybdenum-dependent transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.770
ANB38174.1	ModA1	A6024_09700	A6024_09730	ModD protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Molybdate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.773
ANB38174.1	ModB1	A6024_09700	A6024_09725	ModD protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Molybdenum ABC transporter permease subunit; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.779
ANB38174.1	ModC1	A6024_09700	A6024_09720	ModD protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Molybdenum ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.767
ANB38174.1	MopB	A6024_09700	A6024_07605	ModD protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Molybdenum-dependent transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.496
ANB38175.1	ANB38174.1	A6024_09705	A6024_09700	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	ModD protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.781
ANB38175.1	ANB38176.1	A6024_09705	A6024_09710	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.878
ANB38175.1	ANB38177.1	A6024_09705	A6024_09715	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.795
ANB38175.1	ANB38181.1	A6024_09705	A6024_09735	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Molybdenum-dependent transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.661
ANB38175.1	ANB39589.1	A6024_09705	A6024_17730	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Sulfate ABC transporter permease subunit CysT; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.822
ANB38175.1	ModA1	A6024_09705	A6024_09730	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Molybdate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.775
ANB38175.1	ModB1	A6024_09705	A6024_09725	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Molybdenum ABC transporter permease subunit; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.886
ANB38175.1	ModC1	A6024_09705	A6024_09720	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Molybdenum ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.790
ANB38176.1	ANB38174.1	A6024_09710	A6024_09700	ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	ModD protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.781
ANB38176.1	ANB38175.1	A6024_09710	A6024_09705	ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.878
ANB38176.1	ANB38177.1	A6024_09710	A6024_09715	ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.995
ANB38176.1	ANB38181.1	A6024_09710	A6024_09735	ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	Molybdenum-dependent transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.705

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Network Stats

number of nodes:

11

number of edges:

30

average node degree:

5.45

avg. local clustering coefficient:

0.848

expected number of edges:

11

PPI enrichment p-value:

7.77e-07

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:0045116

Protein neddylation

4 of 6

3.02

4.15

2.39e-08

GO:0032446

Protein modification by small protein conjugation

8 of 195

1.81

3.61

2.01e-10

GO:0019941

Modification-dependent protein catabolic process

5 of 249

1.5

0.00018

GO:0016567

Protein ubiquitination

4 of 176

1.55

1.3

0.0011

GO:0006511

Ubiquitin-dependent protein catabolic process

4 of 241

1.41

1.04

0.0036

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0031625

Ubiquitin protein ligase binding

4 of 31

2.3

2.63

8.04e-06

GO:0019788

NEDD8 transferase activity

2 of 2

3.19

1.6

0.0013

GO:0019787

Ubiquitin-like protein transferase activity

3 of 145

1.51

0.72

0.0334

GO:0005515

Protein binding

5 of 886

0.94

0.52

0.0376

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0031463

Cul3-RING ubiquitin ligase complex

3 of 3

3.19

3.02

3.32e-06

GO:0031461

cullin-RING ubiquitin ligase complex

4 of 54

2.06

2.35

1.62e-05

GO:0019005

SCF ubiquitin ligase complex

2 of 22

2.15

0.98

0.0147

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:2918

Protein neddylation, and SCF ubiquitin ligase complex

7 of 19

2.76

7.48

3.06e-15

CL:2914

cullin-RING ubiquitin ligase complex, and COP9 signalosome

8 of 42

2.47

7.15

1.16e-15

CL:2941

Protein neddylation

3 of 5

2.97

2.93

4.46e-06

CL:2920

Mixed, incl. Nuclear SCF ubiquitin ligase complex, and Cullin

2 of 10

2.49

1.13

0.0086

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map04120

Ubiquitin mediated proteolysis

7 of 131

1.92

4.01

9.32e-11

map04141

Protein processing in endoplasmic reticulum

3 of 221

1.32

0.71

0.0259

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-8951664

Neddylation

6 of 131

1.85

2.96

1.00e-07

MAP-9013422

RHOBTB1 GTPase cycle

2 of 20

2.19

0.91

0.0206

MAP-9013418

RHOBTB2 GTPase cycle

2 of 24

2.11

0.9

0.0206

MAP-597592

Post-translational protein modification

6 of 798

1.07

0.86

0.0019

MAP-9706574

RHOBTB GTPase Cycle

2 of 32

1.99

0.82

0.0285

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0031463

Cul3-RING ubiquitin ligase complex

3 of 3

3.19

3.14

1.99e-06

GOCC:0031461

cullin-RING ubiquitin ligase complex

5 of 65

2.08

3.02

4.52e-07

GOCC:1902494

Catalytic complex

7 of 954

1.06

1.03

0.00012

GOCC:0019005

SCF ubiquitin ligase complex

2 of 37

1.93

0.71

0.0463

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR045093

Cullin

3 of 4

3.07

2.57

2.20e-05

IPR001373

Cullin, N-terminal

3 of 5

2.97

2.56

2.20e-05

IPR016159

Cullin repeat-like-containing domain superfamily

3 of 6

2.89

2.55

2.20e-05

IPR019559

Cullin protein, neddylation domain

2 of 3

3.02

1.4

0.0030

IPR036317

Cullin homology domain superfamily

2 of 4

2.89

1.35

0.0036

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00884

Cullin protein neddylation domain

2 of 3

3.02

1.6

0.0013

SM00182

Cullin

2 of 3

3.02

1.6

0.0013

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