(29 nodes) Telomeric DNA binding network (Labrus bergylta)

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:
	stn1	CST complex subunit STN1; Component of the CST complex proposed to act as a specialized replication factor promoting DNA replication under conditions of replication stress or natural replication barriers such as the telomere duplex. The CST complex binds single-stranded DNA with high affinity in a sequence-independent manner, while isolated subunits bind DNA with low affinity by themselves. Initially the CST complex has been proposed to protect telomeres from DNA degradation. However, the CST complex has been shown to be involved in several aspects of telomere replication. (365 aa)
	ENSLBEP00000006873	Uncharacterized protein. (125 aa)
	ENSLBEP00000006864	EST1_DNA_bind domain-containing protein. (695 aa)
	ENSLBEP00000006855	HTH myb-type domain-containing protein. (181 aa)
	ENSLBEP00000005132	Telo_bind domain-containing protein. (305 aa)
	smg1	SMG1 nonsense mediated mRNA decay associated PI3K related kinase; Belongs to the PI3/PI4-kinase family. (3608 aa)
	pot1	Protection of telomeres 1 homolog. (718 aa)
	xrcc5	X-ray repair cross-complementing protein 5; Single-stranded DNA-dependent ATP-dependent helicase. Belongs to the ku80 family. (724 aa)
	smg7	SMG7 nonsense mediated mRNA decay factor. (1119 aa)
	xrcc6	X-ray repair complementing defective repair in Chinese hamster cells 6. (619 aa)
	RPA1	Replication protein A subunit; As part of the heterotrimeric replication protein A complex (RPA/RP-A), binds and stabilizes single-stranded DNA intermediates, that form during DNA replication or upon DNA stress. It prevents their reannealing and in parallel, recruits and activates different proteins and complexes involved in DNA metabolism. Thereby, it plays an essential role both in DNA replication and the cellular response to DNA damage. (705 aa)
	smg5	SMG5 nonsense mediated mRNA decay factor. (1121 aa)
	smg6	SMG6 nonsense mediated mRNA decay factor. (1666 aa)
	LOC109988732	TERF1 (TRF1)-interacting nuclear factor 2. (557 aa)
	LOC109977373	Uncharacterized protein. (1071 aa)
	LOC109978929	Uncharacterized protein. (641 aa)
	LOC109989819	Uncharacterized protein. (448 aa)
	LOC109989025	Zgc:91944. (527 aa)
	ten1	TEN1 subunit of CST complex. (134 aa)
	ENSLBEP00000015661	Zinc finger and BTB domain containing 48. (602 aa)
	telo2	TEL2, telomere maintenance 2, homolog (S. cerevisiae). (831 aa)
	terf1	Telomeric repeat-binding factor; Binds the telomeric double-stranded 5'-TTAGGG-3' repeat. (370 aa)
	upf2	Uncharacterized protein. (1289 aa)
	tp53bp1	Tumor protein p53 binding protein, 1. (1256 aa)
	hmbox1	Homeobox containing 1. (535 aa)
	upf3a	UPF3A regulator of nonsense mediated mRNA decay. (446 aa)
	rpa1	Replication protein A subunit; As part of the heterotrimeric replication protein A complex (RPA/RP-A), binds and stabilizes single-stranded DNA intermediates, that form during DNA replication or upon DNA stress. It prevents their reannealing and in parallel, recruits and activates different proteins and complexes involved in DNA metabolism. Thereby, it plays an essential role both in DNA replication and the cellular response to DNA damage. (605 aa)
	rad50	RAD50 homolog, double strand break repair protein. (1284 aa)
	terf2ip	Uncharacterized protein. (736 aa)

Your Current Organism:

Labrus bergylta

NCBI taxonomy Id: 56723
Other names: L. bergylta, ballan wrasse

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
ENSLBEP00000005132	ENSLBEP00000006855	ENSLBEP00000005132	ENSLBEP00000006855	Telo_bind domain-containing protein.	HTH myb-type domain-containing protein.	0.936
ENSLBEP00000005132	ENSLBEP00000006873	ENSLBEP00000005132	ENSLBEP00000006873	Telo_bind domain-containing protein.	Uncharacterized protein.	0.972
ENSLBEP00000005132	LOC109988732	ENSLBEP00000005132	ENSLBEP00000001787	Telo_bind domain-containing protein.	TERF1 (TRF1)-interacting nuclear factor 2.	0.986
ENSLBEP00000005132	LOC109989819	ENSLBEP00000005132	ENSLBEP00000009703	Telo_bind domain-containing protein.	Uncharacterized protein.	0.986
ENSLBEP00000005132	RPA1	ENSLBEP00000005132	ENSLBEP00000002897	Telo_bind domain-containing protein.	Replication protein A subunit; As part of the heterotrimeric replication protein A complex (RPA/RP-A), binds and stabilizes single-stranded DNA intermediates, that form during DNA replication or upon DNA stress. It prevents their reannealing and in parallel, recruits and activates different proteins and complexes involved in DNA metabolism. Thereby, it plays an essential role both in DNA replication and the cellular response to DNA damage.	0.612
ENSLBEP00000005132	rad50	ENSLBEP00000005132	ENSLBEP00000033266	Telo_bind domain-containing protein.	RAD50 homolog, double strand break repair protein.	0.641
ENSLBEP00000005132	rpa1	ENSLBEP00000005132	ENSLBEP00000028522	Telo_bind domain-containing protein.	Replication protein A subunit; As part of the heterotrimeric replication protein A complex (RPA/RP-A), binds and stabilizes single-stranded DNA intermediates, that form during DNA replication or upon DNA stress. It prevents their reannealing and in parallel, recruits and activates different proteins and complexes involved in DNA metabolism. Thereby, it plays an essential role both in DNA replication and the cellular response to DNA damage.	0.612
ENSLBEP00000005132	stn1	ENSLBEP00000005132	ENSLBEP00000011975	Telo_bind domain-containing protein.	CST complex subunit STN1; Component of the CST complex proposed to act as a specialized replication factor promoting DNA replication under conditions of replication stress or natural replication barriers such as the telomere duplex. The CST complex binds single-stranded DNA with high affinity in a sequence-independent manner, while isolated subunits bind DNA with low affinity by themselves. Initially the CST complex has been proposed to protect telomeres from DNA degradation. However, the CST complex has been shown to be involved in several aspects of telomere replication.	0.799
ENSLBEP00000005132	ten1	ENSLBEP00000005132	ENSLBEP00000013432	Telo_bind domain-containing protein.	TEN1 subunit of CST complex.	0.730
ENSLBEP00000005132	terf1	ENSLBEP00000005132	ENSLBEP00000019249	Telo_bind domain-containing protein.	Telomeric repeat-binding factor; Binds the telomeric double-stranded 5'-TTAGGG-3' repeat.	0.970
ENSLBEP00000005132	terf2ip	ENSLBEP00000005132	ENSLBEP00000033300	Telo_bind domain-containing protein.	Uncharacterized protein.	0.969
ENSLBEP00000005132	xrcc6	ENSLBEP00000005132	ENSLBEP00000003490	Telo_bind domain-containing protein.	X-ray repair complementing defective repair in Chinese hamster cells 6.	0.490
ENSLBEP00000006855	ENSLBEP00000005132	ENSLBEP00000006855	ENSLBEP00000005132	HTH myb-type domain-containing protein.	Telo_bind domain-containing protein.	0.936
ENSLBEP00000006855	LOC109989819	ENSLBEP00000006855	ENSLBEP00000009703	HTH myb-type domain-containing protein.	Uncharacterized protein.	0.979
ENSLBEP00000006855	pot1	ENSLBEP00000006855	ENSLBEP00000004711	HTH myb-type domain-containing protein.	Protection of telomeres 1 homolog.	0.936
ENSLBEP00000006855	rad50	ENSLBEP00000006855	ENSLBEP00000033266	HTH myb-type domain-containing protein.	RAD50 homolog, double strand break repair protein.	0.856
ENSLBEP00000006855	stn1	ENSLBEP00000006855	ENSLBEP00000011975	HTH myb-type domain-containing protein.	CST complex subunit STN1; Component of the CST complex proposed to act as a specialized replication factor promoting DNA replication under conditions of replication stress or natural replication barriers such as the telomere duplex. The CST complex binds single-stranded DNA with high affinity in a sequence-independent manner, while isolated subunits bind DNA with low affinity by themselves. Initially the CST complex has been proposed to protect telomeres from DNA degradation. However, the CST complex has been shown to be involved in several aspects of telomere replication.	0.628
ENSLBEP00000006855	ten1	ENSLBEP00000006855	ENSLBEP00000013432	HTH myb-type domain-containing protein.	TEN1 subunit of CST complex.	0.586
ENSLBEP00000006855	terf1	ENSLBEP00000006855	ENSLBEP00000019249	HTH myb-type domain-containing protein.	Telomeric repeat-binding factor; Binds the telomeric double-stranded 5'-TTAGGG-3' repeat.	0.875
ENSLBEP00000006855	terf2ip	ENSLBEP00000006855	ENSLBEP00000033300	HTH myb-type domain-containing protein.	Uncharacterized protein.	0.986