D778_00127 protein (Xanthomarina gelatinilytica)

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

D778_00127

SAM-dependent methyltransferase. (396 aa)

Predicted Functional Partners:

D778_00126

0.784

D778_00128

0.668

D778_01751

0.660

D778_00125

0.645

D778_01754

0.565

D778_02162

0.518

D778_00123

0.493

D778_00335

0.489

D778_00124

0.454

D778_02064

0.452

Your Current Organism:

Xanthomarina gelatinilytica

NCBI taxonomy Id: 1137281
Other names: Formosa sp. AK20, JCM 18821, MTCC 11705, X. gelatinilytica, Xanthomarina gelatinilytica Vaidya et al. 2015, strain AK20

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 annotation	node2 annotation	score
D778_00123	D778_00124	Ribosomal RNA small subunit methyltransferase E; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit.	Putative protein-transmembrane prediction.	0.795
D778_00123	D778_00125	Ribosomal RNA small subunit methyltransferase E; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit.	TRNA/rRNA methyltransferase.	0.488
D778_00123	D778_00126	Ribosomal RNA small subunit methyltransferase E; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit.	Permease.	0.443
D778_00123	D778_00127	Ribosomal RNA small subunit methyltransferase E; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit.	SAM-dependent methyltransferase.	0.493
D778_00124	D778_00123	Putative protein-transmembrane prediction.	Ribosomal RNA small subunit methyltransferase E; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit.	0.795
D778_00124	D778_00125	Putative protein-transmembrane prediction.	TRNA/rRNA methyltransferase.	0.477
D778_00124	D778_00126	Putative protein-transmembrane prediction.	Permease.	0.452
D778_00124	D778_00127	Putative protein-transmembrane prediction.	SAM-dependent methyltransferase.	0.454
D778_00125	D778_00123	TRNA/rRNA methyltransferase.	Ribosomal RNA small subunit methyltransferase E; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit.	0.488
D778_00125	D778_00124	TRNA/rRNA methyltransferase.	Putative protein-transmembrane prediction.	0.477
D778_00125	D778_00126	TRNA/rRNA methyltransferase.	Permease.	0.645
D778_00125	D778_00127	TRNA/rRNA methyltransferase.	SAM-dependent methyltransferase.	0.645
D778_00125	D778_00128	TRNA/rRNA methyltransferase.	Hydrolase, haloacid dehalogenase-like family.	0.561
D778_00126	D778_00123	Permease.	Ribosomal RNA small subunit methyltransferase E; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit.	0.443
D778_00126	D778_00124	Permease.	Putative protein-transmembrane prediction.	0.452
D778_00126	D778_00125	Permease.	TRNA/rRNA methyltransferase.	0.645
D778_00126	D778_00127	Permease.	SAM-dependent methyltransferase.	0.784
D778_00126	D778_00128	Permease.	Hydrolase, haloacid dehalogenase-like family.	0.668
D778_00127	D778_00123	SAM-dependent methyltransferase.	Ribosomal RNA small subunit methyltransferase E; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit.	0.493
D778_00127	D778_00124	SAM-dependent methyltransferase.	Putative protein-transmembrane prediction.	0.454