(22 nodes) RmlC-like jelly roll fold network (Siansivirga zeaxanthinifaciens)

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:
	AJR03807.1	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (207 aa)
	AJR04399.1	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (194 aa)
	AJR04378.1	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (230 aa)
	AJR04157.1	Pirin; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the pirin family. (240 aa)
	AJR04097.1	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (191 aa)
	kduI	5-keto-4-deoxyuronate isomerase; Catalyzes the isomerization of 5-dehydro-4-deoxy-D- glucuronate to 3-deoxy-D-glycero-2,5-hexodiulosonate. Belongs to the KduI family. (280 aa)
	AJR03944.1	Catabolite gene activator protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (194 aa)
	AJR03940.1	Nucleotidyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (639 aa)
	AJR03715.1	Cupin; Derived by automated computational analysis using gene prediction method: Protein Homology. (115 aa)
	AJR03669.1	Cupin; Derived by automated computational analysis using gene prediction method: Protein Homology. (122 aa)
	nbaC	3-hydroxyanthranilate 3,4-dioxygenase; Catalyzes the oxidative ring opening of 3-hydroxyanthranilate to 2-amino-3-carboxymuconate semialdehyde, which spontaneously cyclizes to quinolinate; Belongs to the 3-HAO family. (177 aa)
	AJR03456.1	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (225 aa)
	AJR03454.1	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (350 aa)
	AJR03400.1	Mannose-6-phosphate isomerase; Derived by automated computational analysis using gene prediction method: Protein Homology. (323 aa)
	AJR04824.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+. (151 aa)
	ppnP	Hypothetical protein; Catalyzes the phosphorolysis of diverse nucleosides, yielding D-ribose 1-phosphate and the respective free bases. Can use uridine, adenosine, guanosine, cytidine, thymidine, inosine and xanthosine as substrates. Also catalyzes the reverse reactions. (93 aa)
	AJR02875.1	dTDP-4-dehydrorhamnose 3,5-epimerase; Catalyzes the epimerization of the C3' and C5'positions of dTDP-6-deoxy-D-xylo-4-hexulose, forming dTDP-6-deoxy-L-lyxo-4-hexulose. Belongs to the dTDP-4-dehydrorhamnose 3,5-epimerase family. (181 aa)
	AJR02388.1	WxcM domain-containing protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (133 aa)
	AJR02374.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (201 aa)
	AJR04421.1	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (210 aa)
	AJR04611.1	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (221 aa)
	AJR05004.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+. (209 aa)

Your Current Organism:

Siansivirga zeaxanthinifaciens

NCBI taxonomy Id: 1454006
Other names: S. zeaxanthinifaciens CC-SAMT-1, Siansivirga zeaxanthinifaciens CC-SAMT-1

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
AJR02388.1	AJR02875.1	AW14_00790	AW14_03705	WxcM domain-containing protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	dTDP-4-dehydrorhamnose 3,5-epimerase; Catalyzes the epimerization of the C3' and C5'positions of dTDP-6-deoxy-D-xylo-4-hexulose, forming dTDP-6-deoxy-L-lyxo-4-hexulose. Belongs to the dTDP-4-dehydrorhamnose 3,5-epimerase family.	0.753
AJR02875.1	AJR02388.1	AW14_03705	AW14_00790	dTDP-4-dehydrorhamnose 3,5-epimerase; Catalyzes the epimerization of the C3' and C5'positions of dTDP-6-deoxy-D-xylo-4-hexulose, forming dTDP-6-deoxy-L-lyxo-4-hexulose. Belongs to the dTDP-4-dehydrorhamnose 3,5-epimerase family.	WxcM domain-containing protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.753
AJR03454.1	AJR03456.1	AW14_07250	AW14_07260	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.486
AJR03456.1	AJR03454.1	AW14_07260	AW14_07250	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.486
AJR03456.1	AJR04378.1	AW14_07260	AW14_12695	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.590
AJR03715.1	kduI	AW14_08815	AW14_10500	Cupin; Derived by automated computational analysis using gene prediction method: Protein Homology.	5-keto-4-deoxyuronate isomerase; Catalyzes the isomerization of 5-dehydro-4-deoxy-D- glucuronate to 3-deoxy-D-glycero-2,5-hexodiulosonate. Belongs to the KduI family.	0.411
AJR04097.1	AJR04378.1	AW14_11055	AW14_12695	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.572
AJR04097.1	AJR04611.1	AW14_11055	AW14_14170	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.631
AJR04378.1	AJR03456.1	AW14_12695	AW14_07260	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.590
AJR04378.1	AJR04097.1	AW14_12695	AW14_11055	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.572
AJR04378.1	AJR04611.1	AW14_12695	AW14_14170	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.922
AJR04399.1	AJR05004.1	AW14_12810	AW14_14445	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.720
AJR04611.1	AJR04097.1	AW14_14170	AW14_11055	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.631
AJR04611.1	AJR04378.1	AW14_14170	AW14_12695	Transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.922
AJR05004.1	AJR04399.1	AW14_14445	AW14_12810	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Crp/Fnr family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.720
kduI	AJR03715.1	AW14_10500	AW14_08815	5-keto-4-deoxyuronate isomerase; Catalyzes the isomerization of 5-dehydro-4-deoxy-D- glucuronate to 3-deoxy-D-glycero-2,5-hexodiulosonate. Belongs to the KduI family.	Cupin; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.411