dennd1b protein (Oryzias latipes) - STRING interaction network

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Known Interactions

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Predicted Interactions

gene neighborhood

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Score

dennd1b

DENN/MADD domain containing 1B. (868 aa)

Predicted Functional Partners:

LOC101155198

0.843

rab35

0.843

ift27

0.688

dennd1a

0.634

LOC101158129

0.576

suox

0.560

dennd2c

0.500

rab15

0.487

rab28

0.457

LOC101168509

0.436

Your Current Organism:

Oryzias latipes

NCBI taxonomy Id: 8090
Other names: Japanese medaka, Japanese rice fish, O. latipes, Poecilia latipes, medaka

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
LOC101155198	LOC101158129	ENSORLP00000001357	ENSORLP00000016222	Si:dkey-16l2.16.	Rab proteins geranylgeranyltransferase component A; Substrate-binding subunit (component A) of the Rab geranylgeranyltransferase (GGTase) complex. Binds unprenylated Rab proteins and presents the substrate peptide to the catalytic component B. The component A is thought to be regenerated by transferring its prenylated Rab back to the donor membrane.	0.634
LOC101155198	LOC101168509	ENSORLP00000001357	ENSORLP00000015081	Si:dkey-16l2.16.	Rab GDP dissociation inhibitor; Regulates the GDP/GTP exchange reaction of most RAB proteins by inhibiting the dissociation of GDP from them, and the subsequent binding of GTP; Belongs to the Rab GDI family.	0.688
LOC101155198	dennd1a	ENSORLP00000001357	ENSORLP00000016448	Si:dkey-16l2.16.	DENN/MADD domain containing 1A.	0.929
LOC101155198	dennd1b	ENSORLP00000001357	ENSORLP00000010975	Si:dkey-16l2.16.	DENN/MADD domain containing 1B.	0.843
LOC101155198	dennd2c	ENSORLP00000001357	ENSORLP00000000776	Si:dkey-16l2.16.	DENN/MADD domain containing 2C.	0.688
LOC101155198	rab35	ENSORLP00000001357	ENSORLP00000045332	Si:dkey-16l2.16.	RAB35, member RAS oncogene family b.	0.901
LOC101158129	LOC101155198	ENSORLP00000016222	ENSORLP00000001357	Rab proteins geranylgeranyltransferase component A; Substrate-binding subunit (component A) of the Rab geranylgeranyltransferase (GGTase) complex. Binds unprenylated Rab proteins and presents the substrate peptide to the catalytic component B. The component A is thought to be regenerated by transferring its prenylated Rab back to the donor membrane.	Si:dkey-16l2.16.	0.634
LOC101158129	LOC101168509	ENSORLP00000016222	ENSORLP00000015081	Rab proteins geranylgeranyltransferase component A; Substrate-binding subunit (component A) of the Rab geranylgeranyltransferase (GGTase) complex. Binds unprenylated Rab proteins and presents the substrate peptide to the catalytic component B. The component A is thought to be regenerated by transferring its prenylated Rab back to the donor membrane.	Rab GDP dissociation inhibitor; Regulates the GDP/GTP exchange reaction of most RAB proteins by inhibiting the dissociation of GDP from them, and the subsequent binding of GTP; Belongs to the Rab GDI family.	0.605
LOC101158129	dennd1a	ENSORLP00000016222	ENSORLP00000016448	Rab proteins geranylgeranyltransferase component A; Substrate-binding subunit (component A) of the Rab geranylgeranyltransferase (GGTase) complex. Binds unprenylated Rab proteins and presents the substrate peptide to the catalytic component B. The component A is thought to be regenerated by transferring its prenylated Rab back to the donor membrane.	DENN/MADD domain containing 1A.	0.619
LOC101158129	dennd1b	ENSORLP00000016222	ENSORLP00000010975	Rab proteins geranylgeranyltransferase component A; Substrate-binding subunit (component A) of the Rab geranylgeranyltransferase (GGTase) complex. Binds unprenylated Rab proteins and presents the substrate peptide to the catalytic component B. The component A is thought to be regenerated by transferring its prenylated Rab back to the donor membrane.	DENN/MADD domain containing 1B.	0.576
LOC101158129	dennd2c	ENSORLP00000016222	ENSORLP00000000776	Rab proteins geranylgeranyltransferase component A; Substrate-binding subunit (component A) of the Rab geranylgeranyltransferase (GGTase) complex. Binds unprenylated Rab proteins and presents the substrate peptide to the catalytic component B. The component A is thought to be regenerated by transferring its prenylated Rab back to the donor membrane.	DENN/MADD domain containing 2C.	0.489
LOC101158129	ift27	ENSORLP00000016222	ENSORLP00000043442	Rab proteins geranylgeranyltransferase component A; Substrate-binding subunit (component A) of the Rab geranylgeranyltransferase (GGTase) complex. Binds unprenylated Rab proteins and presents the substrate peptide to the catalytic component B. The component A is thought to be regenerated by transferring its prenylated Rab back to the donor membrane.	Intraflagellar transport 27.	0.604
LOC101158129	rab15	ENSORLP00000016222	ENSORLP00000034214	Rab proteins geranylgeranyltransferase component A; Substrate-binding subunit (component A) of the Rab geranylgeranyltransferase (GGTase) complex. Binds unprenylated Rab proteins and presents the substrate peptide to the catalytic component B. The component A is thought to be regenerated by transferring its prenylated Rab back to the donor membrane.	RAB15, member RAS oncogene family.	0.627
LOC101158129	rab28	ENSORLP00000016222	ENSORLP00000000746	Rab proteins geranylgeranyltransferase component A; Substrate-binding subunit (component A) of the Rab geranylgeranyltransferase (GGTase) complex. Binds unprenylated Rab proteins and presents the substrate peptide to the catalytic component B. The component A is thought to be regenerated by transferring its prenylated Rab back to the donor membrane.	Uncharacterized protein.	0.595
LOC101158129	rab35	ENSORLP00000016222	ENSORLP00000045332	Rab proteins geranylgeranyltransferase component A; Substrate-binding subunit (component A) of the Rab geranylgeranyltransferase (GGTase) complex. Binds unprenylated Rab proteins and presents the substrate peptide to the catalytic component B. The component A is thought to be regenerated by transferring its prenylated Rab back to the donor membrane.	RAB35, member RAS oncogene family b.	0.634
LOC101168509	LOC101155198	ENSORLP00000015081	ENSORLP00000001357	Rab GDP dissociation inhibitor; Regulates the GDP/GTP exchange reaction of most RAB proteins by inhibiting the dissociation of GDP from them, and the subsequent binding of GTP; Belongs to the Rab GDI family.	Si:dkey-16l2.16.	0.688
LOC101168509	LOC101158129	ENSORLP00000015081	ENSORLP00000016222	Rab GDP dissociation inhibitor; Regulates the GDP/GTP exchange reaction of most RAB proteins by inhibiting the dissociation of GDP from them, and the subsequent binding of GTP; Belongs to the Rab GDI family.	Rab proteins geranylgeranyltransferase component A; Substrate-binding subunit (component A) of the Rab geranylgeranyltransferase (GGTase) complex. Binds unprenylated Rab proteins and presents the substrate peptide to the catalytic component B. The component A is thought to be regenerated by transferring its prenylated Rab back to the donor membrane.	0.605
LOC101168509	dennd1a	ENSORLP00000015081	ENSORLP00000016448	Rab GDP dissociation inhibitor; Regulates the GDP/GTP exchange reaction of most RAB proteins by inhibiting the dissociation of GDP from them, and the subsequent binding of GTP; Belongs to the Rab GDI family.	DENN/MADD domain containing 1A.	0.494
LOC101168509	dennd1b	ENSORLP00000015081	ENSORLP00000010975	Rab GDP dissociation inhibitor; Regulates the GDP/GTP exchange reaction of most RAB proteins by inhibiting the dissociation of GDP from them, and the subsequent binding of GTP; Belongs to the Rab GDI family.	DENN/MADD domain containing 1B.	0.436
LOC101168509	ift27	ENSORLP00000015081	ENSORLP00000043442	Rab GDP dissociation inhibitor; Regulates the GDP/GTP exchange reaction of most RAB proteins by inhibiting the dissociation of GDP from them, and the subsequent binding of GTP; Belongs to the Rab GDI family.	Intraflagellar transport 27.	0.631

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Network Stats

number of nodes:

11

number of edges:

31

average node degree:

5.64

avg. local clustering coefficient:

0.851

expected number of edges:

11

PPI enrichment p-value:

3.64e-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:0015031

Protein transport

6 of 102

1.42

1.54

5.95e-05

GO:0007059

Chromosome segregation

2 of 10

1.95

0.77

0.0357

GO:0006810

Transport

7 of 642

0.69

0.44

0.0221

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0031992

Energy transducer activity

2 of 3

2.47

0.8

0.0355

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005887

Integral component of plasma membrane

3 of 54

1.39

0.7

0.0310

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:37425997

(2023) Polymeric carbohydrates utilization separates microbiomes into niches: insights into the diversity of microbial carbohydrate-active enzymes in the inner shelf of the Pearl River Estuary, China.

2 of 3

2.47

1.15

0.0078

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:5389

Mixed, incl. MotA/TolQ/ExbB proton channel, and Protein of unknown function (DUF3450)

10 of 13

2.54

9.46

5.84e-21

CL:5392

MotA/TolQ/ExbB proton channel, and Protein of unknown function (DUF3450)

5 of 5

2.65

4.88

4.64e-10

CL:5403

Mixed, incl. MotA/TolQ/ExbB proton channel, and Protein of unknown function (DUF3450)

3 of 6

2.35

2.21

6.11e-05

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0653

Protein transport

6 of 36

1.87

3.16

2.77e-08

KW-0735

Signal-anchor

2 of 4

2.35

1.23

0.0052

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF03544

Gram-negative bacterial TonB protein C-terminal

3 of 8

2.22

1.59

0.00098

PF01618

MotA/TolQ/ExbB proton channel family

3 of 8

2.22

1.59

0.00098

PF11932

Protein of unknown function (DUF3450)

2 of 2

2.65

1.2

0.0065

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR037682

TonB, C-terminal

3 of 8

2.22

1.38

0.0025

IPR006260

TonB/TolA, C-terminal

3 of 8

2.22

1.38

0.0025

IPR002898

MotA/TolQ/ExbB proton channel

3 of 8

2.22

1.38

0.0025

IPR017270

Putative MotA/TolQ/ExbB family protein

2 of 2

2.65

1.05

0.0124

IPR016866

Uncharacterised conserved protein UCP028069

2 of 2

2.65

1.05

0.0124

(more ...)

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