(69 nodes) Nucleotide excision repair network (Cebus capucinus)

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:
	ZNF608	Zinc finger protein 608. (1512 aa)
	PRKRIP1	PRKR interacting protein 1. (185 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. (557 aa)
	ENSCCAP00000002159	Rep_fac_C domain-containing protein. (306 aa)
	YJU2	YJU2 splicing factor homolog. (309 aa)
	ENSCCAP00000003507	Uncharacterized protein. (78 aa)
	PPIL3	Peptidyl-prolyl cis-trans isomerase; PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides; Belongs to the cyclophilin-type PPIase family. (180 aa)
	ERCC1	ERCC excision repair 1, endonuclease non-catalytic subunit. (298 aa)
	POLD4	Uncharacterized protein. (107 aa)
	RFC1	Replication factor C subunit 1. (1122 aa)
	ENSCCAP00000005186	Uncharacterized protein. (110 aa)
	ERCC2	ERCC excision repair 2, TFIIH core complex helicase subunit. (770 aa)
	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. (368 aa)
	POLD3	DNA polymerase delta 3, accessory subunit. (464 aa)
	LOC108301415	Uncharacterized protein. (111 aa)
	CLSPN	Claspin. (1336 aa)
	GTF2H4	General transcription factor IIH subunit 4; Component of the general transcription and DNA repair factor IIH (TFIIH) core complex which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA. Belongs to the TFB2 family. (462 aa)
	XPC	XPC complex subunit, DNA damage recognition and repair factor. (938 aa)
	CUL4B	Cullin 4B; Belongs to the cullin family. (937 aa)
	LIG1	DNA ligase. (919 aa)
	POLE4	DNA polymerase epsilon 4, accessory subunit. (119 aa)
	ATAD5	ATPase family AAA domain containing 5. (1686 aa)
	FBH1	F-box DNA helicase 1. (1080 aa)
	POLD2	DNA polymerase delta 2, accessory subunit. (498 aa)
	ZNF609	Zinc finger protein 609. (1411 aa)
	ERCC3	ERCC excision repair 3, TFIIH core complex helicase subunit. (782 aa)
	BIVM	XPGN domain-containing protein. (1597 aa)
	DDX11	DEAD/H-box helicase 11. (957 aa)
	RPA3	Uncharacterized protein. (121 aa)
	MEIOB	Meiosis specific with OB-fold. (455 aa)
	ERCC6	ERCC excision repair 6, chromatin remodeling factor. (1498 aa)
	RPA2	Replication protein A2. (339 aa)
	SASS6	SAS-6 centriolar assembly protein. (657 aa)
	ENSCCAP00000016251	Uncharacterized protein. (107 aa)
	GTF2H1	General transcription factor IIH subunit 1. (555 aa)
	ERCC8	ERCC excision repair 8, CSA ubiquitin ligase complex subunit. (361 aa)
	ENSCCAP00000022407	Uncharacterized protein. (67 aa)
	CABP5	Calcium binding protein 5. (234 aa)
	GTF3C6	General transcription factor IIIC subunit 6. (212 aa)
	CDK7	Cyclin dependent kinase 7; Belongs to the protein kinase superfamily. (346 aa)
	RFC4	Replication factor C subunit 4. (363 aa)
	RAD23A	RAD23 homolog A, nucleotide excision repair protein. (362 aa)
	LOC108293639	Uncharacterized protein. (289 aa)
	GTF2H5	General transcription factor IIH subunit 5. (71 aa)
	DDB2	Damage specific DNA binding protein 2. (427 aa)
	ENSCCAP00000026918	Uncharacterized protein. (262 aa)
	POLD1	DNA polymerase. (1105 aa)
	POLE	DNA polymerase epsilon catalytic subunit; DNA polymerase II participates in chromosomal DNA replication; Belongs to the DNA polymerase type-B family. (2286 aa)
	GTF2H2	General transcription factor IIH subunit. (395 aa)
	CCNH	Cyclin H; Belongs to the cyclin family. (325 aa)
	CDK20	Cyclin dependent kinase 20; Belongs to the protein kinase superfamily. (346 aa)
	WDR76	WD repeat domain 76. (559 aa)
	CETN2	Centrin 2. (172 aa)
	GTF2H3	General transcription factor IIH subunit 3. (287 aa)
	CUL4A	Cullin 4A; Belongs to the cullin family. (696 aa)
	CHRAC1	CBFD_NFYB_HMF domain-containing protein. (131 aa)
	ERCC4	ERCC excision repair 4, endonuclease catalytic subunit. (916 aa)
	RAD23B	RAD23 homolog B, nucleotide excision repair protein. (409 aa)
	XPA	XPA, DNA damage recognition and repair factor. (273 aa)
	MNAT1	CDK-activating kinase assembly factor MAT1; Stabilizes the cyclin H-CDK7 complex to form a functional CDK-activating kinase (CAK) enzymatic complex. (309 aa)
	POLE3	DNA polymerase epsilon 3, accessory subunit. (147 aa)
	ENSCCAP00000032998	General transcription factor IIH subunit. (384 aa)
	DDB1	Damage specific DNA binding protein 1. (1140 aa)
	POLE2	DNA polymerase epsilon subunit; Participates in DNA repair and in chromosomal DNA replication; Belongs to the DNA polymerase epsilon subunit B family. (534 aa)
	RFC2	Rep_fac_C domain-containing protein. (209 aa)
	PCNA	Proliferating cell nuclear antigen; This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand; Belongs to the PCNA family. (261 aa)
	RBX1	Ring-box 1. (108 aa)
	RFC3	Replication factor C subunit 3. (236 aa)
	RFC5	Replication factor C subunit 5. (387 aa)

Your Current Organism:

Cebus capucinus

NCBI taxonomy Id: 9516
Other names: C. capucinus, white-faced capuchin, white-faced sapajou, white-throated capuchin

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 proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ATAD5	BIVM	ENSCCAP00000011049	ENSCCAP00000014185	ATPase family AAA domain containing 5.	XPGN domain-containing protein.	0.699
ATAD5	CLSPN	ENSCCAP00000011049	ENSCCAP00000005987	ATPase family AAA domain containing 5.	Claspin.	0.865
ATAD5	CUL4A	ENSCCAP00000011049	ENSCCAP00000030121	ATPase family AAA domain containing 5.	Cullin 4A; Belongs to the cullin family.	0.545
ATAD5	CUL4B	ENSCCAP00000011049	ENSCCAP00000009281	ATPase family AAA domain containing 5.	Cullin 4B; Belongs to the cullin family.	0.545
ATAD5	DDB1	ENSCCAP00000011049	ENSCCAP00000036063	ATPase family AAA domain containing 5.	Damage specific DNA binding protein 1.	0.599
ATAD5	DDX11	ENSCCAP00000011049	ENSCCAP00000014264	ATPase family AAA domain containing 5.	DEAD/H-box helicase 11.	0.796
ATAD5	ENSCCAP00000002159	ENSCCAP00000011049	ENSCCAP00000002159	ATPase family AAA domain containing 5.	Rep_fac_C domain-containing protein.	0.943
ATAD5	ENSCCAP00000003507	ENSCCAP00000011049	ENSCCAP00000003507	ATPase family AAA domain containing 5.	Uncharacterized protein.	0.943
ATAD5	ENSCCAP00000016251	ENSCCAP00000011049	ENSCCAP00000016251	ATPase family AAA domain containing 5.	Uncharacterized protein.	0.458
ATAD5	ENSCCAP00000022407	ENSCCAP00000011049	ENSCCAP00000022407	ATPase family AAA domain containing 5.	Uncharacterized protein.	0.458
ATAD5	ERCC2	ENSCCAP00000011049	ENSCCAP00000005394	ATPase family AAA domain containing 5.	ERCC excision repair 2, TFIIH core complex helicase subunit.	0.550
ATAD5	ERCC4	ENSCCAP00000011049	ENSCCAP00000030387	ATPase family AAA domain containing 5.	ERCC excision repair 4, endonuclease catalytic subunit.	0.658
ATAD5	FBH1	ENSCCAP00000011049	ENSCCAP00000011086	ATPase family AAA domain containing 5.	F-box DNA helicase 1.	0.727
ATAD5	GTF2H1	ENSCCAP00000011049	ENSCCAP00000021300	ATPase family AAA domain containing 5.	General transcription factor IIH subunit 1.	0.497
ATAD5	LIG1	ENSCCAP00000011049	ENSCCAP00000009352	ATPase family AAA domain containing 5.	DNA ligase.	0.854
ATAD5	LOC108301415	ENSCCAP00000011049	ENSCCAP00000005755	ATPase family AAA domain containing 5.	Uncharacterized protein.	0.458
ATAD5	MEIOB	ENSCCAP00000011049	ENSCCAP00000014680	ATPase family AAA domain containing 5.	Meiosis specific with OB-fold.	0.772
ATAD5	PCNA	ENSCCAP00000011049	ENSCCAP00000038769	ATPase family AAA domain containing 5.	Proliferating cell nuclear antigen; This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand; Belongs to the PCNA family.	0.978
ATAD5	POLD1	ENSCCAP00000011049	ENSCCAP00000027187	ATPase family AAA domain containing 5.	DNA polymerase.	0.809
ATAD5	POLD2	ENSCCAP00000011049	ENSCCAP00000011678	ATPase family AAA domain containing 5.	DNA polymerase delta 2, accessory subunit.	0.686