(30 nodes) Tetrapyrrole binding network (Martelella mediterranea)

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:
	ccmC	Cytochrome c-type biogenesis protein CcmC; Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes; Belongs to the CcmC/CycZ/HelC family. (247 aa)
	cyoB	Ubiquinol oxidase subunit 1; Belongs to the heme-copper respiratory oxidase family. (660 aa)
	AQZ50253.1	Hypothetical protein. (186 aa)
	AQZ50492.1	Putative membrane protein. (412 aa)
	katA	Catalase A. (498 aa)
	AQZ50676.1	Corrinoid ABC transporter substrate-binding protein. (286 aa)
	scpA_1	Methylmalonyl-CoA mutase. (713 aa)
	AQZ50769.1	Ycf53-like protein. (208 aa)
	cycM	Cytochrome c552. (270 aa)
	AQZ51225.1	ABC transporter substrate-binding protein. (338 aa)
	yjbI	Hemoglobin-like protein yjbI. (130 aa)
	yfiY_1	Putative siderophore-binding lipoprotein YfiY precursor. (310 aa)
	yfiY_2	Putative siderophore-binding lipoprotein YfiY precursor. (301 aa)
	AQZ51321.1	CO2+/MG2+ efflux protein ApaG. (131 aa)
	adhB_1	G3-ADH subunit II. (442 aa)
	AQZ51422.1	Succinate dehydrogenase cytochrome b556 small membrane subunit. (126 aa)
	nicB_1	Nicotinate dehydrogenase subunit B. (301 aa)
	AQZ51670.1	Cytochrome c556. (147 aa)
	nicB_2	Nicotinate dehydrogenase subunit B. (435 aa)
	sir	Sulfite reductase. (551 aa)
	metH	Methionine synthase; Catalyzes the transfer of a methyl group from methyl- cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Subsequently, remethylates the cofactor using methyltetrahydrofolate. (1256 aa)
	ctaD_1	Cytochrome c oxidase subunit 1; Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1-3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B. (549 aa)
	AQZ53631.1	TspO/MBR family protein. (152 aa)
	ccmF_1	Cytochrome c-type biogenesis protein CcmF. (664 aa)
	ccmE	Heme chaperone 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. (149 aa)
	yfmC	Ferric-citrate-binding protein. (336 aa)
	yedZ	Flavocytochrome YedZ; Part of the MsrPQ system that repairs oxidized periplasmic proteins containing methionine sulfoxide residues (Met-O), using respiratory chain electrons. Thus protects these proteins from oxidative-stress damage caused by reactive species of oxygen and chlorine generated by the host defense mechanisms. MsrPQ is essential for the maintenance of envelope integrity under bleach stress, rescuing a wide series of structurally unrelated periplasmic proteins from methionine oxidation. MsrQ provides electrons for reduction to the reductase catalytic subunit MsrP, using the [...] (222 aa)
	fbcH_1	Cytochrome b/c1. (286 aa)
	queG	Epoxyqueuosine reductase; Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr); Belongs to the QueG family. (379 aa)
	ctb	Group 3 hemoglobin ctb. (163 aa)

Your Current Organism:

Martelella mediterranea

NCBI taxonomy Id: 1122214
Other names: M. mediterranea DSM 17316, Martelella mediterranea DSM 17316

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
AQZ51670.1	nicB_1	Mame_02337	Mame_02336	Cytochrome c556.	Nicotinate dehydrogenase subunit B.	0.768
adhB_1	ctaD_1	Mame_02073	Mame_03392	G3-ADH subunit II.	Cytochrome c oxidase subunit 1; Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1-3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B.	0.790
adhB_1	cycM	Mame_02073	Mame_01491	G3-ADH subunit II.	Cytochrome c552.	0.785
adhB_1	cyoB	Mame_02073	Mame_00656	G3-ADH subunit II.	Ubiquinol oxidase subunit 1; Belongs to the heme-copper respiratory oxidase family.	0.790
adhB_1	fbcH_1	Mame_02073	Mame_04055	G3-ADH subunit II.	Cytochrome b/c1.	0.754
ccmC	ccmE	Mame_04237	Mame_03545	Cytochrome c-type biogenesis protein CcmC; Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes; Belongs to the CcmC/CycZ/HelC family.	Heme chaperone 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.	0.994
ccmC	ccmF_1	Mame_04237	Mame_03544	Cytochrome c-type biogenesis protein CcmC; Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes; Belongs to the CcmC/CycZ/HelC family.	Cytochrome c-type biogenesis protein CcmF.	0.864
ccmE	ccmC	Mame_03545	Mame_04237	Heme chaperone 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.	Cytochrome c-type biogenesis protein CcmC; Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes; Belongs to the CcmC/CycZ/HelC family.	0.994
ccmE	ccmF_1	Mame_03545	Mame_03544	Heme chaperone 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.	Cytochrome c-type biogenesis protein CcmF.	0.977
ccmF_1	ccmC	Mame_03544	Mame_04237	Cytochrome c-type biogenesis protein CcmF.	Cytochrome c-type biogenesis protein CcmC; Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes; Belongs to the CcmC/CycZ/HelC family.	0.864
ccmF_1	ccmE	Mame_03544	Mame_03545	Cytochrome c-type biogenesis protein CcmF.	Heme chaperone 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.	0.977
ctaD_1	adhB_1	Mame_03392	Mame_02073	Cytochrome c oxidase subunit 1; Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1-3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B.	G3-ADH subunit II.	0.790
ctaD_1	cycM	Mame_03392	Mame_01491	Cytochrome c oxidase subunit 1; Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1-3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B.	Cytochrome c552.	0.926
ctaD_1	cyoB	Mame_03392	Mame_00656	Cytochrome c oxidase subunit 1; Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1-3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B.	Ubiquinol oxidase subunit 1; Belongs to the heme-copper respiratory oxidase family.	0.911
ctaD_1	fbcH_1	Mame_03392	Mame_04055	Cytochrome c oxidase subunit 1; Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1-3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B.	Cytochrome b/c1.	0.855
ctaD_1	nicB_1	Mame_03392	Mame_02336	Cytochrome c oxidase subunit 1; Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1-3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B.	Nicotinate dehydrogenase subunit B.	0.790
ctaD_1	nicB_2	Mame_03392	Mame_02897	Cytochrome c oxidase subunit 1; Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1-3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B.	Nicotinate dehydrogenase subunit B.	0.790
cycM	adhB_1	Mame_01491	Mame_02073	Cytochrome c552.	G3-ADH subunit II.	0.785
cycM	ctaD_1	Mame_01491	Mame_03392	Cytochrome c552.	Cytochrome c oxidase subunit 1; Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1-3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B.	0.926
cycM	cyoB	Mame_01491	Mame_00656	Cytochrome c552.	Ubiquinol oxidase subunit 1; Belongs to the heme-copper respiratory oxidase family.	0.926