RPA3518 protein (Rhodopseudomonas palustris CGA009)

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

RPA3518

Excinuclease ABC, C subunit, N-terminal. (95 aa)

Predicted Functional Partners:

dnlJ

0.516

RPA1041

0.434

RPA1042

0.434

RPA4287

0.434

rsmI

0.419

Your Current Organism:

Rhodopseudomonas palustris CGA009

NCBI taxonomy Id: 258594
Other names: R. palustris CGA009, Rhodopseudomonas palustris str. CGA009, Rhodopseudomonas palustris strain CGA009

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
RPA1041	RPA1042	RPA1041	RPA1042	Conserved hypothetical protein.	Conserved unknown protein; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	0.865
RPA1041	RPA3518	RPA1041	RPA3518	Conserved hypothetical protein.	Excinuclease ABC, C subunit, N-terminal.	0.434
RPA1041	rsmI	RPA1041	RPA0324	Conserved hypothetical protein.	Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA.	0.535
RPA1042	RPA1041	RPA1042	RPA1041	Conserved unknown protein; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	Conserved hypothetical protein.	0.865
RPA1042	RPA3518	RPA1042	RPA3518	Conserved unknown protein; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	Excinuclease ABC, C subunit, N-terminal.	0.434
RPA1042	rsmI	RPA1042	RPA0324	Conserved unknown protein; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA.	0.535
RPA3518	RPA1041	RPA3518	RPA1041	Excinuclease ABC, C subunit, N-terminal.	Conserved hypothetical protein.	0.434
RPA3518	RPA1042	RPA3518	RPA1042	Excinuclease ABC, C subunit, N-terminal.	Conserved unknown protein; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	0.434
RPA3518	RPA4287	RPA3518	RPA4287	Excinuclease ABC, C subunit, N-terminal.	Conserved hypothetical protein; InterPro IPR000051.	0.434
RPA3518	dnlJ	RPA3518	RPA3517	Excinuclease ABC, C subunit, N-terminal.	DNA ligase; DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double- stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA.	0.516
RPA3518	rsmI	RPA3518	RPA0324	Excinuclease ABC, C subunit, N-terminal.	Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA.	0.419
RPA4287	RPA3518	RPA4287	RPA3518	Conserved hypothetical protein; InterPro IPR000051.	Excinuclease ABC, C subunit, N-terminal.	0.434
RPA4287	rsmI	RPA4287	RPA0324	Conserved hypothetical protein; InterPro IPR000051.	Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA.	0.535
dnlJ	RPA3518	RPA3517	RPA3518	DNA ligase; DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double- stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA.	Excinuclease ABC, C subunit, N-terminal.	0.516
rsmI	RPA1041	RPA0324	RPA1041	Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA.	Conserved hypothetical protein.	0.535
rsmI	RPA1042	RPA0324	RPA1042	Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA.	Conserved unknown protein; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	0.535
rsmI	RPA3518	RPA0324	RPA3518	Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA.	Excinuclease ABC, C subunit, N-terminal.	0.419
rsmI	RPA4287	RPA0324	RPA4287	Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA.	Conserved hypothetical protein; InterPro IPR000051.	0.535