(42 nodes) Oxidoreductase activity, acting on a sulfur group of donors, and Cytochrome complex assembly network (Pseudomonas mucidolens)

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:
	SDU83269.1	Glutaredoxin. (117 aa)
	SDU83275.1	Nucleoid-associated protein. (334 aa)
	SDU83729.1	Peroxiredoxin (alkyl hydroperoxide reductase subunit C). (200 aa)
	SDU84518.1	Starvation-inducible DNA-binding protein; Belongs to the Dps family. (157 aa)
	ccmA	Heme exporter protein A; Part of the ABC transporter complex CcmAB involved in the biogenesis of c-type cytochromes; once thought to export heme, this seems not to be the case, but its exact role is uncertain. Responsible for energy coupling to the transport system; Belongs to the ABC transporter superfamily. CcmA exporter (TC 3.A.1.107) family. (211 aa)
	SDU86618.1	Heme exporter protein B; Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes; Belongs to the CcmB/CycW/HelB family. (222 aa)
	ccmC	Heme exporter protein C; Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes; Belongs to the CcmC/CycZ/HelC family. (251 aa)
	SDU86632.1	Heme exporter protein D; Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes; Belongs to the CcmD/CycX/HelD family. (58 aa)
	ccmE	Cytochrome c-type biogenesis protein CcmE; Heme chaperone required for the biogenesis of c-type cytochromes. Transiently binds heme delivered by CcmC and transfers the heme to apo-cytochromes in a process facilitated by CcmF and CcmH. Belongs to the CcmE/CycJ family. (151 aa)
	SDU86647.1	Cytochrome c-type biogenesis protein CcmF. (662 aa)
	SDU86654.1	Cytochrome c biogenesis protein CcmG, thiol:disulfide interchange protein DsbE. (178 aa)
	SDU86660.1	Cytochrome c-type biogenesis protein CcmH; Possible subunit of a heme lyase. (157 aa)
	SDU86668.1	Cytochrome c-type biogenesis protein CcmH. (397 aa)
	SDU86675.1	Hypothetical protein. (134 aa)
	SDU87601.1	Protein tyrosine phosphatase; Manually curated; Belongs to the low molecular weight phosphotyrosine protein phosphatase family. (146 aa)
	SDU93455.1	Protease I. (188 aa)
	SDU93474.1	Thioredoxin reductase. (295 aa)
	tpx	Thiol peroxidase (atypical 2-Cys peroxiredoxin); Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides; Belongs to the peroxiredoxin family. Tpx subfamily. (166 aa)
	SDU96212.1	Alkyl hydroperoxide reductase subunit F. (521 aa)
	SDU96219.1	Peroxiredoxin (alkyl hydroperoxide reductase subunit C); Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides; Belongs to the peroxiredoxin family. AhpC/Prx1 subfamily. (187 aa)
	SDU96672.1	2,4-dienoyl-CoA reductase. (678 aa)
	SDU97682.1	2,4-dienoyl-CoA reductase. (721 aa)
	SDU97960.1	Thioredoxin 1. (120 aa)
	SDU98617.1	N-acetylmuramoyl-L-alanine amidase. (257 aa)
	SDU98624.1	Signal transduction histidine kinase. (439 aa)
	SDU98631.1	Two component transcriptional regulator, winged helix family. (226 aa)
	dsbD	Thiol:disulfide interchange protein DsbD; Required to facilitate the formation of correct disulfide bonds in some periplasmic proteins and for the assembly of the periplasmic c-type cytochromes. Acts by transferring electrons from cytoplasmic thioredoxin to the periplasm. This transfer involves a cascade of disulfide bond formation and reduction steps. Belongs to the thioredoxin family. DsbD subfamily. (576 aa)
	SDU98643.1	Prolipoprotein diacylglyceryl transferase. (289 aa)
	SDU98650.1	Thiol:disulfide interchange protein DsbC; Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process; Belongs to the thioredoxin family. DsbC subfamily. (253 aa)
	msrB	Peptide-methionine (R)-S-oxide reductase; Belongs to the MsrB Met sulfoxide reductase family. (130 aa)
	SDU99805.1	Glutaredoxin. (123 aa)
	SDV03429.1	Thiol:disulfide interchange protein DsbC; Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process; Belongs to the thioredoxin family. DsbC subfamily. (243 aa)
	dsbB	Thiol:disulfide interchange protein DsbB; Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein; Belongs to the DsbB family. (168 aa)
	SDV04402.1	Thioredoxin reductase (NADPH). (320 aa)
	fur	Fur family transcriptional regulator, ferric uptake regulator; Belongs to the Fur family. (134 aa)
	msrA	Peptide-methionine (S)-S-oxide reductase; Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine. (215 aa)
	SDV06666.1	Thioredoxin. (145 aa)
	dsbB-2	Disulfide bond formation protein DsbB; Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein; Belongs to the DsbB family. (173 aa)
	SDV09767.1	Thioredoxin; Belongs to the thioredoxin family. (109 aa)
	SDV09916.1	1-Cys peroxiredoxin. (212 aa)
	SDV10016.1	Hypothetical protein. (191 aa)
	SDV11098.1	Cytochrome c biogenesis protein CcdA. (408 aa)

Your Current Organism:

Pseudomonas mucidolens

NCBI taxonomy Id: 46679
Other names: ATCC 4685, CIP 103298, IAM 12406, JCM 2781, LMG 2223, LMG:2223, NBRC 103159, NCTC 8068, NRRL B-16, P. mucidolens

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 proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SDU83269.1	SDU83275.1	SAMN05216202_0259	SAMN05216202_0260	Glutaredoxin.	Nucleoid-associated protein.	0.809
SDU83269.1	msrA	SAMN05216202_0259	SAMN05216202_4146	Glutaredoxin.	Peptide-methionine (S)-S-oxide reductase; Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine.	0.847
SDU83275.1	SDU83269.1	SAMN05216202_0260	SAMN05216202_0259	Nucleoid-associated protein.	Glutaredoxin.	0.809
SDU83729.1	SDU84518.1	SAMN05216202_0333	SAMN05216202_0466	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Starvation-inducible DNA-binding protein; Belongs to the Dps family.	0.660
SDU83729.1	SDU86654.1	SAMN05216202_0333	SAMN05216202_0801	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Cytochrome c biogenesis protein CcmG, thiol:disulfide interchange protein DsbE.	0.827
SDU83729.1	SDU93455.1	SAMN05216202_0333	SAMN05216202_1864	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Protease I.	0.430
SDU83729.1	SDU93474.1	SAMN05216202_0333	SAMN05216202_1867	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Thioredoxin reductase.	0.890
SDU83729.1	SDU96212.1	SAMN05216202_0333	SAMN05216202_2306	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Alkyl hydroperoxide reductase subunit F.	0.890
SDU83729.1	SDU96672.1	SAMN05216202_0333	SAMN05216202_2381	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	2,4-dienoyl-CoA reductase.	0.844
SDU83729.1	SDU97682.1	SAMN05216202_0333	SAMN05216202_2546	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	2,4-dienoyl-CoA reductase.	0.844
SDU83729.1	SDU97960.1	SAMN05216202_0333	SAMN05216202_2592	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Thioredoxin 1.	0.529
SDU83729.1	SDU98643.1	SAMN05216202_0333	SAMN05216202_2702	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Prolipoprotein diacylglyceryl transferase.	0.828
SDU83729.1	SDV04402.1	SAMN05216202_0333	SAMN05216202_3661	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Thioredoxin reductase (NADPH).	0.910
SDU83729.1	SDV06666.1	SAMN05216202_0333	SAMN05216202_4156	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Thioredoxin.	0.531
SDU83729.1	SDV09767.1	SAMN05216202_0333	SAMN05216202_4874	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Thioredoxin; Belongs to the thioredoxin family.	0.606
SDU83729.1	SDV10016.1	SAMN05216202_0333	SAMN05216202_4933	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Hypothetical protein.	0.822
SDU83729.1	SDV11098.1	SAMN05216202_0333	SAMN05216202_5181	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Cytochrome c biogenesis protein CcdA.	0.868
SDU83729.1	fur	SAMN05216202_0333	SAMN05216202_3862	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Fur family transcriptional regulator, ferric uptake regulator; Belongs to the Fur family.	0.725
SDU83729.1	tpx	SAMN05216202_0333	SAMN05216202_1977	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	Thiol peroxidase (atypical 2-Cys peroxiredoxin); Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides; Belongs to the peroxiredoxin family. Tpx subfamily.	0.523
SDU84518.1	SDU83729.1	SAMN05216202_0466	SAMN05216202_0333	Starvation-inducible DNA-binding protein; Belongs to the Dps family.	Peroxiredoxin (alkyl hydroperoxide reductase subunit C).	0.660