BAJ50549.1 protein (Caldiarchaeum subterraneum)

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.

Knowledge-based Evidence

from curated databases

textmining

Assay-based Predictions

experimentally determined

co-expression

Genomic Predictions

gene neighborhood

gene co-occurrence

gene fusions

Your Input:

Neighborhood

Gene Fusion

Co-occurrence

Co-expression

Experiments

Databases

Textmining

[Homology]

Score

BAJ50549.1

DNA repair protein RadB. (214 aa)

Predicted Functional Partners:

pcn

0.960

fen

0.949

BAJ51190.1

0.876

polB

0.831

BAJ51472.1

0.821

top6A

0.788

dbh

0.784

BAJ50056.1

0.782

BAJ50143.1

0.761

carS

0.745

Your Current Organism:

Caldiarchaeum subterraneum

NCBI taxonomy Id: 311458
Other names: C. Caldiarchaeum subterraneum, Candidatus Caldiarchaeum subterraneum, uncultured crenarchaeote 10-H-08

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
BAJ50056.1	BAJ50549.1	CSUB_C0195	CSUB_C0690	DNA topoisomerase III.	DNA repair protein RadB.	0.782
BAJ50056.1	BAJ51190.1	CSUB_C0195	CSUB_C1339	DNA topoisomerase III.	ERCC4 domain-containing protein.	0.925
BAJ50056.1	BAJ51472.1	CSUB_C0195	CSUB_C1621	DNA topoisomerase III.	Replication factor A1.	0.813
BAJ50056.1	dbh	CSUB_C0195	CSUB_C1496	DNA topoisomerase III.	DNA polymerase IV; Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis.	0.599
BAJ50056.1	fen	CSUB_C0195	CSUB_C0799	DNA topoisomerase III.	Flap endonuclease 1; Structure-specific nuclease with 5'-flap endonuclease and 5'- 3' exonuclease activities involved in DNA replication and repair. During DNA replication, cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Binds the unpaired 3'-DNA end and kinks the DNA to facilitate 5' cleavage specificity. Cleaves one nucleotide into the double-stranded DNA from the junction in flap DNA, leaving a nick for ligation. Also involved in the base excision repair (BER) pathway. A [...]	0.762
BAJ50056.1	pcn	CSUB_C0195	CSUB_C1233	DNA topoisomerase III.	Proliferating cell nuclear antigen PCNA; Sliding clamp subunit that acts as a moving platform for DNA processing. Responsible for tethering the catalytic subunit of DNA polymerase and other proteins to DNA during high-speed replication.	0.704
BAJ50056.1	polB	CSUB_C0195	CSUB_C1382	DNA topoisomerase III.	DNA polymerase II small subunit; Possesses two activities: a DNA synthesis (polymerase) and an exonucleolytic activity that degrades single-stranded DNA in the 3' to 5' direction. Has a template-primer preference which is characteristic of a replicative DNA polymerase; Belongs to the DNA polymerase delta/II small subunit family.	0.598
BAJ50056.1	top6A	CSUB_C0195	CSUB_C1269	DNA topoisomerase III.	DNA topoisomerase VI subunit A; Relaxes both positive and negative superturns and exhibits a strong decatenase activity; Belongs to the TOP6A family.	0.563
BAJ50143.1	BAJ50549.1	CSUB_C0282	CSUB_C0690	Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family.	DNA repair protein RadB.	0.761
BAJ50143.1	carS	CSUB_C0282	CSUB_C0502	Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family.	Conserved hypothetical protein; Catalyzes the formation of CDP-2,3-bis-(O-geranylgeranyl)-sn- glycerol (CDP-archaeol) from 2,3-bis-(O-geranylgeranyl)-sn-glycerol 1- phosphate (DGGGP) and CTP. This reaction is the third ether-bond- formation step in the biosynthesis of archaeal membrane lipids.	0.769
BAJ50143.1	dbh	CSUB_C0282	CSUB_C1496	Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family.	DNA polymerase IV; Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis.	0.744
BAJ50143.1	fen	CSUB_C0282	CSUB_C0799	Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family.	Flap endonuclease 1; Structure-specific nuclease with 5'-flap endonuclease and 5'- 3' exonuclease activities involved in DNA replication and repair. During DNA replication, cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Binds the unpaired 3'-DNA end and kinks the DNA to facilitate 5' cleavage specificity. Cleaves one nucleotide into the double-stranded DNA from the junction in flap DNA, leaving a nick for ligation. Also involved in the base excision repair (BER) pathway. A [...]	0.927
BAJ50143.1	pcn	CSUB_C0282	CSUB_C1233	Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family.	Proliferating cell nuclear antigen PCNA; Sliding clamp subunit that acts as a moving platform for DNA processing. Responsible for tethering the catalytic subunit of DNA polymerase and other proteins to DNA during high-speed replication.	0.970
BAJ50143.1	polB	CSUB_C0282	CSUB_C1382	Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family.	DNA polymerase II small subunit; Possesses two activities: a DNA synthesis (polymerase) and an exonucleolytic activity that degrades single-stranded DNA in the 3' to 5' direction. Has a template-primer preference which is characteristic of a replicative DNA polymerase; Belongs to the DNA polymerase delta/II small subunit family.	0.782
BAJ50549.1	BAJ50056.1	CSUB_C0690	CSUB_C0195	DNA repair protein RadB.	DNA topoisomerase III.	0.782
BAJ50549.1	BAJ50143.1	CSUB_C0690	CSUB_C0282	DNA repair protein RadB.	Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family.	0.761
BAJ50549.1	BAJ51190.1	CSUB_C0690	CSUB_C1339	DNA repair protein RadB.	ERCC4 domain-containing protein.	0.876
BAJ50549.1	BAJ51472.1	CSUB_C0690	CSUB_C1621	DNA repair protein RadB.	Replication factor A1.	0.821
BAJ50549.1	carS	CSUB_C0690	CSUB_C0502	DNA repair protein RadB.	Conserved hypothetical protein; Catalyzes the formation of CDP-2,3-bis-(O-geranylgeranyl)-sn- glycerol (CDP-archaeol) from 2,3-bis-(O-geranylgeranyl)-sn-glycerol 1- phosphate (DGGGP) and CTP. This reaction is the third ether-bond- formation step in the biosynthesis of archaeal membrane lipids.	0.745
BAJ50549.1	dbh	CSUB_C0690	CSUB_C1496	DNA repair protein RadB.	DNA polymerase IV; Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis.	0.784