(5 nodes) PNK, FHA domain, and Resolution of AP sites via the single-nucleotide replacement pathway network (Anolis carolinensis)

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:
	POLB	DNA polymerase; DNA polymerase that functions in several pathways of DNA repair. Involved in base excision repair (BER) responsible for repair of lesions that give rise to abasic (AP) sites in DNA. Also contributes to DNA double-strand break repair by non-homologous end joining and homologous recombination. Has both template-dependent and template- independent (terminal transferase) DNA polymerase activities. Has also a 5'-deoxyribose-5-phosphate lyase (dRP lyase) activity. (335 aa)
	APTX	Aprataxin. (359 aa)
	xrcc1	Uncharacterized protein. (656 aa)
	PNKP	Polynucleotide kinase 3'-phosphatase. (568 aa)
	APLF	Aprataxin and PNKP like factor. (511 aa)

Your Current Organism:

Anolis carolinensis

NCBI taxonomy Id: 28377
Other names: A. carolinensis, Carolina anole, UCMZ 53793, green anole

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
APLF	APTX	ENSACAP00000018834	ENSACAP00000003482	Aprataxin and PNKP like factor.	Aprataxin.	0.682
APLF	PNKP	ENSACAP00000018834	ENSACAP00000012550	Aprataxin and PNKP like factor.	Polynucleotide kinase 3'-phosphatase.	0.561
APLF	POLB	ENSACAP00000018834	ENSACAP00000002030	Aprataxin and PNKP like factor.	DNA polymerase; DNA polymerase that functions in several pathways of DNA repair. Involved in base excision repair (BER) responsible for repair of lesions that give rise to abasic (AP) sites in DNA. Also contributes to DNA double-strand break repair by non-homologous end joining and homologous recombination. Has both template-dependent and template- independent (terminal transferase) DNA polymerase activities. Has also a 5'-deoxyribose-5-phosphate lyase (dRP lyase) activity.	0.711
APLF	xrcc1	ENSACAP00000018834	ENSACAP00000004173	Aprataxin and PNKP like factor.	Uncharacterized protein.	0.902
APTX	APLF	ENSACAP00000003482	ENSACAP00000018834	Aprataxin.	Aprataxin and PNKP like factor.	0.682
APTX	PNKP	ENSACAP00000003482	ENSACAP00000012550	Aprataxin.	Polynucleotide kinase 3'-phosphatase.	0.553
APTX	POLB	ENSACAP00000003482	ENSACAP00000002030	Aprataxin.	DNA polymerase; DNA polymerase that functions in several pathways of DNA repair. Involved in base excision repair (BER) responsible for repair of lesions that give rise to abasic (AP) sites in DNA. Also contributes to DNA double-strand break repair by non-homologous end joining and homologous recombination. Has both template-dependent and template- independent (terminal transferase) DNA polymerase activities. Has also a 5'-deoxyribose-5-phosphate lyase (dRP lyase) activity.	0.532
APTX	xrcc1	ENSACAP00000003482	ENSACAP00000004173	Aprataxin.	Uncharacterized protein.	0.822
PNKP	APLF	ENSACAP00000012550	ENSACAP00000018834	Polynucleotide kinase 3'-phosphatase.	Aprataxin and PNKP like factor.	0.561
PNKP	APTX	ENSACAP00000012550	ENSACAP00000003482	Polynucleotide kinase 3'-phosphatase.	Aprataxin.	0.553
PNKP	POLB	ENSACAP00000012550	ENSACAP00000002030	Polynucleotide kinase 3'-phosphatase.	DNA polymerase; DNA polymerase that functions in several pathways of DNA repair. Involved in base excision repair (BER) responsible for repair of lesions that give rise to abasic (AP) sites in DNA. Also contributes to DNA double-strand break repair by non-homologous end joining and homologous recombination. Has both template-dependent and template- independent (terminal transferase) DNA polymerase activities. Has also a 5'-deoxyribose-5-phosphate lyase (dRP lyase) activity.	0.931
PNKP	xrcc1	ENSACAP00000012550	ENSACAP00000004173	Polynucleotide kinase 3'-phosphatase.	Uncharacterized protein.	0.979
POLB	APLF	ENSACAP00000002030	ENSACAP00000018834	DNA polymerase; DNA polymerase that functions in several pathways of DNA repair. Involved in base excision repair (BER) responsible for repair of lesions that give rise to abasic (AP) sites in DNA. Also contributes to DNA double-strand break repair by non-homologous end joining and homologous recombination. Has both template-dependent and template- independent (terminal transferase) DNA polymerase activities. Has also a 5'-deoxyribose-5-phosphate lyase (dRP lyase) activity.	Aprataxin and PNKP like factor.	0.711
POLB	APTX	ENSACAP00000002030	ENSACAP00000003482	DNA polymerase; DNA polymerase that functions in several pathways of DNA repair. Involved in base excision repair (BER) responsible for repair of lesions that give rise to abasic (AP) sites in DNA. Also contributes to DNA double-strand break repair by non-homologous end joining and homologous recombination. Has both template-dependent and template- independent (terminal transferase) DNA polymerase activities. Has also a 5'-deoxyribose-5-phosphate lyase (dRP lyase) activity.	Aprataxin.	0.532
POLB	PNKP	ENSACAP00000002030	ENSACAP00000012550	DNA polymerase; DNA polymerase that functions in several pathways of DNA repair. Involved in base excision repair (BER) responsible for repair of lesions that give rise to abasic (AP) sites in DNA. Also contributes to DNA double-strand break repair by non-homologous end joining and homologous recombination. Has both template-dependent and template- independent (terminal transferase) DNA polymerase activities. Has also a 5'-deoxyribose-5-phosphate lyase (dRP lyase) activity.	Polynucleotide kinase 3'-phosphatase.	0.931
POLB	xrcc1	ENSACAP00000002030	ENSACAP00000004173	DNA polymerase; DNA polymerase that functions in several pathways of DNA repair. Involved in base excision repair (BER) responsible for repair of lesions that give rise to abasic (AP) sites in DNA. Also contributes to DNA double-strand break repair by non-homologous end joining and homologous recombination. Has both template-dependent and template- independent (terminal transferase) DNA polymerase activities. Has also a 5'-deoxyribose-5-phosphate lyase (dRP lyase) activity.	Uncharacterized protein.	0.978
xrcc1	APLF	ENSACAP00000004173	ENSACAP00000018834	Uncharacterized protein.	Aprataxin and PNKP like factor.	0.902
xrcc1	APTX	ENSACAP00000004173	ENSACAP00000003482	Uncharacterized protein.	Aprataxin.	0.822
xrcc1	PNKP	ENSACAP00000004173	ENSACAP00000012550	Uncharacterized protein.	Polynucleotide kinase 3'-phosphatase.	0.979
xrcc1	POLB	ENSACAP00000004173	ENSACAP00000002030	Uncharacterized protein.	DNA polymerase; DNA polymerase that functions in several pathways of DNA repair. Involved in base excision repair (BER) responsible for repair of lesions that give rise to abasic (AP) sites in DNA. Also contributes to DNA double-strand break repair by non-homologous end joining and homologous recombination. Has both template-dependent and template- independent (terminal transferase) DNA polymerase activities. Has also a 5'-deoxyribose-5-phosphate lyase (dRP lyase) activity.	0.978