SJZ32491.1 protein (Sediminibacterium ginsengisoli)

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:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

SJZ32491.1

RNA polymerase sigma-70 factor, ECF subfamily. (183 aa)

Predicted Functional Partners:

SJZ32501.1

0.846

SJZ32506.1

0.825

SJZ38195.1

0.773

SJZ32960.1

0.765

SKA18244.1

0.759

SJZ59435.1

0.753

SJZ54938.1

0.736

SJZ33886.1

0.735

SKA12012.1

0.678

rpoC

0.609

Your Current Organism:

Sediminibacterium ginsengisoli

NCBI taxonomy Id: 413434
Other names: DSM 22335, JCM 15794, KCTC 12833, S. ginsengisoli, Sediminibacterium ginsengisoli Kim et al. 2013, strain DCY13

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
SJZ32491.1	SJZ32501.1	SAMN04488132_10188	SAMN04488132_10189	RNA polymerase sigma-70 factor, ECF subfamily.	Hypothetical protein.	0.846
SJZ32491.1	SJZ32506.1	SAMN04488132_10188	SAMN04488132_10190	RNA polymerase sigma-70 factor, ECF subfamily.	Hypothetical protein.	0.825
SJZ32491.1	SJZ32960.1	SAMN04488132_10188	SAMN04488132_101130	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.765
SJZ32491.1	SJZ33886.1	SAMN04488132_10188	SAMN04488132_101206	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.735
SJZ32491.1	SJZ38195.1	SAMN04488132_10188	SAMN04488132_101500	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase, sigma subunit, ECF family; Belongs to the sigma-70 factor family. ECF subfamily.	0.773
SJZ32491.1	SJZ54938.1	SAMN04488132_10188	SAMN04488132_102533	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.736
SJZ32491.1	SJZ59435.1	SAMN04488132_10188	SAMN04488132_10355	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.753
SJZ32491.1	SKA12012.1	SAMN04488132_10188	SAMN04488132_1118	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.678
SJZ32491.1	SKA18244.1	SAMN04488132_10188	SAMN04488132_1143	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.759
SJZ32491.1	rpoC	SAMN04488132_10188	SAMN04488132_11365	RNA polymerase sigma-70 factor, ECF subfamily.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.609
SJZ32501.1	SJZ32491.1	SAMN04488132_10189	SAMN04488132_10188	Hypothetical protein.	RNA polymerase sigma-70 factor, ECF subfamily.	0.846
SJZ32501.1	SJZ32506.1	SAMN04488132_10189	SAMN04488132_10190	Hypothetical protein.	Hypothetical protein.	0.787
SJZ32501.1	rpoC	SAMN04488132_10189	SAMN04488132_11365	Hypothetical protein.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.609
SJZ32506.1	SJZ32491.1	SAMN04488132_10190	SAMN04488132_10188	Hypothetical protein.	RNA polymerase sigma-70 factor, ECF subfamily.	0.825
SJZ32506.1	SJZ32501.1	SAMN04488132_10190	SAMN04488132_10189	Hypothetical protein.	Hypothetical protein.	0.787
SJZ32960.1	SJZ32491.1	SAMN04488132_101130	SAMN04488132_10188	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.765
SJZ32960.1	SJZ33886.1	SAMN04488132_101130	SAMN04488132_101206	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.674
SJZ32960.1	SKA12012.1	SAMN04488132_101130	SAMN04488132_1118	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.655
SJZ32960.1	SKA18244.1	SAMN04488132_101130	SAMN04488132_1143	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.692
SJZ32960.1	rpoC	SAMN04488132_101130	SAMN04488132_11365	RNA polymerase sigma-70 factor, ECF subfamily.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.609