XKR4 protein (Callithrix jacchus) - STRING interaction network

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.

Node Color

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

XKR4

XK-related protein. (651 aa)

Predicted Functional Partners:

IGDCC3

0.583

TMEM68

0.568

ATP11C

0.544

APLF

0.534

SLC9A4

0.461

AASDHPPT

0.461

MSANTD4

0.457

HMG20A

0.435

DNAJB1

0.431

Your Current Organism:

Callithrix jacchus

NCBI taxonomy Id: 9483
Other names: C. jacchus, Callithrix jacchus jacchus, common marmoset, white ear-tufted marmoset, white-tufted-ear marmoset

Send network to Cytoscape

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

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
AASDHPPT	MSANTD4	ENSCJAP00000042392	ENSCJAP00000061847	Aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase.	Myb/SANT DNA binding domain containing 4 with coiled-coils.	0.553
AASDHPPT	XKR4	ENSCJAP00000042392	ENSCJAP00000030706	Aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase.	XK-related protein.	0.461
APLF	XKR4	ENSCJAP00000011928	ENSCJAP00000030706	Aprataxin and PNKP like factor.	XK-related protein.	0.534
ATP11C	XKR4	ENSCJAP00000068297	ENSCJAP00000030706	Phospholipid-transporting ATPase; Belongs to the cation transport ATPase (P-type) (TC 3.A.3) family. Type IV subfamily.	XK-related protein.	0.544
DNAJB1	IGDCC3	ENSCJAP00000008462	ENSCJAP00000012868	DnaJ heat shock protein family (Hsp40) member B1.	Immunoglobulin superfamily DCC subclass member 3.	0.441
DNAJB1	XKR4	ENSCJAP00000008462	ENSCJAP00000030706	DnaJ heat shock protein family (Hsp40) member B1.	XK-related protein.	0.431
HMG20A	XKR4	ENSCJAP00000020556	ENSCJAP00000030706	High mobility group protein 20A.	XK-related protein.	0.435
IGDCC3	DNAJB1	ENSCJAP00000012868	ENSCJAP00000008462	Immunoglobulin superfamily DCC subclass member 3.	DnaJ heat shock protein family (Hsp40) member B1.	0.441
IGDCC3	XKR4	ENSCJAP00000012868	ENSCJAP00000030706	Immunoglobulin superfamily DCC subclass member 3.	XK-related protein.	0.583
MSANTD4	AASDHPPT	ENSCJAP00000061847	ENSCJAP00000042392	Myb/SANT DNA binding domain containing 4 with coiled-coils.	Aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase.	0.553
MSANTD4	XKR4	ENSCJAP00000061847	ENSCJAP00000030706	Myb/SANT DNA binding domain containing 4 with coiled-coils.	XK-related protein.	0.457
SLC9A4	XKR4	ENSCJAP00000015168	ENSCJAP00000030706	Sodium/hydrogen exchanger; Belongs to the monovalent cation:proton antiporter 1 (CPA1) transporter (TC 2.A.36) family.	XK-related protein.	0.461
TMEM68	XKR4	ENSCJAP00000030683	ENSCJAP00000030706	PlsC domain-containing protein.	XK-related protein.	0.568
XKR4	AASDHPPT	ENSCJAP00000030706	ENSCJAP00000042392	XK-related protein.	Aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase.	0.461
XKR4	APLF	ENSCJAP00000030706	ENSCJAP00000011928	XK-related protein.	Aprataxin and PNKP like factor.	0.534
XKR4	ATP11C	ENSCJAP00000030706	ENSCJAP00000068297	XK-related protein.	Phospholipid-transporting ATPase; Belongs to the cation transport ATPase (P-type) (TC 3.A.3) family. Type IV subfamily.	0.544
XKR4	DNAJB1	ENSCJAP00000030706	ENSCJAP00000008462	XK-related protein.	DnaJ heat shock protein family (Hsp40) member B1.	0.431
XKR4	HMG20A	ENSCJAP00000030706	ENSCJAP00000020556	XK-related protein.	High mobility group protein 20A.	0.435
XKR4	IGDCC3	ENSCJAP00000030706	ENSCJAP00000012868	XK-related protein.	Immunoglobulin superfamily DCC subclass member 3.	0.583
XKR4	MSANTD4	ENSCJAP00000030706	ENSCJAP00000061847	XK-related protein.	Myb/SANT DNA binding domain containing 4 with coiled-coils.	0.457

page 1 of 2

Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

28

PPI enrichment p-value:

1.32e-06

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:0006351

Transcription, DNA-templated

7 of 25

2.0

3.95

5.53e-10

GO:0006352

DNA-templated transcription, initiation

3 of 15

1.85

1.41

0.0014

GO:0019438

Aromatic compound biosynthetic process

8 of 270

1.02

1.06

1.90e-05

GO:0018130

Heterocycle biosynthetic process

8 of 294

0.98

0.99

3.13e-05

GO:1901362

Organic cyclic compound biosynthetic process

8 of 305

0.97

0.96

3.63e-05

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003899

DNA-directed 5-3 RNA polymerase activity

4 of 6

2.37

2.73

5.59e-06

GO:0016987

Sigma factor activity

3 of 15

1.85

1.33

0.0021

GO:0003677

DNA binding

7 of 307

0.91

0.75

0.0010

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0000428

DNA-directed RNA polymerase complex

4 of 9

2.2

2.71

3.94e-06

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:37075846

(2023) Transcription regulation by CarD in mycobacteria is guided by basal promoter kinetics.

4 of 6

2.37

2.55

1.31e-05

PMID:38741736

(2024) Function of the RNA-targeting class 2 type VI CRISPR Cas system of Rhodobacter capsulatus.

3 of 3

2.55

2.0

0.00020

PMID:30200857

(2018) Transcriptional Responses to ppGpp and DksA.

4 of 14

2.0

1.99

9.46e-05

PMID:34254822

(2021) Promoter Architecture Differences among Alphaproteobacteria and Other Bacterial Taxa.

3 of 5

2.33

1.84

0.00034

PMID:24516534

(2014) Transcriptional profiling of nitrogen fixation and the role of NifA in the diazotrophic endophyte Azoarcus sp. strain BH72.

4 of 23

1.79

1.67

0.00027

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:215

RNA polymerase, and Transcription termination

3 of 5

2.33

1.63

0.00087

CL:92

Ribosome, and RNA polymerase

4 of 67

1.32

0.8

0.0141

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

rsp03020

RNA polymerase

4 of 4

2.55

3.46

2.66e-07

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0000428

DNA-directed RNA polymerase complex

7 of 66

1.57

2.47

6.05e-08

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0240

DNA-directed RNA polymerase

4 of 9

2.2

2.63

5.88e-06

KW-0731

Sigma factor

3 of 15

1.85

1.51

0.00081

KW-0804

Transcription

7 of 150

1.22

1.43

5.88e-06

KW-0548

Nucleotidyltransferase

4 of 45

1.5

1.36

0.00055

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF04545

Sigma-70, region 4

3 of 7

2.18

1.52

0.0013

PF04542

Sigma-70 region 2

3 of 11

1.98

1.39

0.0019

PF00140

Sigma-70 factor, region 1.2

2 of 2

2.55

1.12

0.0091

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR000943

RNA polymerase sigma-70

3 of 4

2.42

1.62

0.00096

IPR007630

RNA polymerase sigma-70 region 4

3 of 7

2.18

1.47

0.0016

IPR014284

RNA polymerase sigma-70 like domain

3 of 11

1.98

1.28

0.0033

IPR013325

RNA polymerase sigma factor, region 2

3 of 11

1.98

1.28

0.0033

IPR007627

RNA polymerase sigma-70 region 2

3 of 11

1.98

1.28

0.0033

(more ...)

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (8%) [HD]

Permalink

Network

Cooccurrence

Experiments

Coexpression

Textmining

Neighborhood

Databases

Fusion

© STRING Consortium 2024

Credits

Access

Info

About