ddpA_3 protein (Streptomyces turgidiscabies)

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

ddpA_3

Putative D,D-dipeptide-binding periplasmic protein DdpA precursor. (526 aa)

Predicted Functional Partners:

ddpC_3

0.971

ddpC_2

0.969

oppD_4

0.963

ddpD

0.956

oppD_6

0.947

gsiD_2

0.916

gsiD_1

0.911

dppC

0.906

gsiD_3

0.906

ddpC_1

0.904

Your Current Organism:

Streptomyces turgidiscabies

NCBI taxonomy Id: 85558
Other names: ATCC 700248, CIP 105577, IFO 16080, JCM 10429, NBRC 16080, NRRL B-24078, S. turgidiscabies, strain SY9113

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
ddpA_3	ddpC_1	T45_03396	T45_02893	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	Putative D,D-dipeptide transport system permease protein.	0.904
ddpA_3	ddpC_2	T45_03396	T45_06405	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	Putative D,D-dipeptide transport system permease protein.	0.969
ddpA_3	ddpC_3	T45_03396	T45_08857	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	Putative D,D-dipeptide transport system permease protein.	0.971
ddpA_3	ddpD	T45_03396	T45_04640	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	Putative D,D-dipeptide transport ATP-binding protein.	0.956
ddpA_3	dppC	T45_03396	T45_01748	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	Dipeptide transport system permease protein.	0.906
ddpA_3	gsiD_1	T45_03396	T45_01737	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	Glutathione transport system permease protein.	0.911
ddpA_3	gsiD_2	T45_03396	T45_01807	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	Glutathione transport system permease protein.	0.916
ddpA_3	gsiD_3	T45_03396	T45_05931	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	Glutathione transport system permease protein.	0.906
ddpA_3	oppD_4	T45_03396	T45_04522	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	Oligopeptide transport ATP-binding protein OppD; Belongs to the binding-protein-dependent transport system permease family.	0.963
ddpA_3	oppD_6	T45_03396	T45_08454	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	Oligopeptide transport ATP-binding protein OppD.	0.947
ddpC_1	ddpA_3	T45_02893	T45_03396	Putative D,D-dipeptide transport system permease protein.	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	0.904
ddpC_1	ddpC_2	T45_02893	T45_06405	Putative D,D-dipeptide transport system permease protein.	Putative D,D-dipeptide transport system permease protein.	0.959
ddpC_1	ddpC_3	T45_02893	T45_08857	Putative D,D-dipeptide transport system permease protein.	Putative D,D-dipeptide transport system permease protein.	0.960
ddpC_1	ddpD	T45_02893	T45_04640	Putative D,D-dipeptide transport system permease protein.	Putative D,D-dipeptide transport ATP-binding protein.	0.805
ddpC_1	gsiD_1	T45_02893	T45_01737	Putative D,D-dipeptide transport system permease protein.	Glutathione transport system permease protein.	0.773
ddpC_1	oppD_4	T45_02893	T45_04522	Putative D,D-dipeptide transport system permease protein.	Oligopeptide transport ATP-binding protein OppD; Belongs to the binding-protein-dependent transport system permease family.	0.816
ddpC_1	oppD_6	T45_02893	T45_08454	Putative D,D-dipeptide transport system permease protein.	Oligopeptide transport ATP-binding protein OppD.	0.815
ddpC_2	ddpA_3	T45_06405	T45_03396	Putative D,D-dipeptide transport system permease protein.	Putative D,D-dipeptide-binding periplasmic protein DdpA precursor.	0.969
ddpC_2	ddpC_1	T45_06405	T45_02893	Putative D,D-dipeptide transport system permease protein.	Putative D,D-dipeptide transport system permease protein.	0.959
ddpC_2	ddpC_3	T45_06405	T45_08857	Putative D,D-dipeptide transport system permease protein.	Putative D,D-dipeptide transport system permease protein.	0.977