KB13_472 protein (beta proteobacterium KB13)

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

KB13_472

[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family. (164 aa)

Predicted Functional Partners:

rpmG

0.736

rluD

0.736

rplX

0.633

rplD

0.628

KB13_48

0.602

rplU

0.582

rpmF

0.580

rplY

0.579

rplO

0.579

obg

0.579

Your Current Organism:

beta proteobacterium KB13

NCBI taxonomy Id: 314607
Other names: b. proteobacterium KB13

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
KB13_472	KB13_48	KB13_472	KB13_48	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	Peptidase U62, modulator of DNA gyrase; [R] COG0312 Predicted Zn-dependent proteases and their inactivated homologs.	0.602
KB13_472	obg	KB13_472	KB13_1074	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	GTP-binding protein Obg/CgtA; An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control. Belongs to the TRAFAC class OBG-HflX-like GTPase superfamily. OBG GTPase family.	0.579
KB13_472	rluD	KB13_472	KB13_562	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	Ribosomal large subunit pseudouridine synthase D; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	0.736
KB13_472	rplD	KB13_472	KB13_1118	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	Ribosomal protein L4/L1 family; Forms part of the polypeptide exit tunnel.	0.628
KB13_472	rplO	KB13_472	KB13_1052	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	Ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.579
KB13_472	rplU	KB13_472	KB13_435	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	Ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family.	0.582
KB13_472	rplX	KB13_472	KB13_1042	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	Ribosomal protein L24; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	0.633
KB13_472	rplY	KB13_472	KB13_1001	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	Ribosomal protein L25, Ctc-form; This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. Belongs to the bacterial ribosomal protein bL25 family. CTC subfamily.	0.579
KB13_472	rpmF	KB13_472	KB13_73	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	[J] COG0333 Ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family.	0.580
KB13_472	rpmG	KB13_472	KB13_482	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	[J] COG0267 Ribosomal protein L33; Belongs to the bacterial ribosomal protein bL33 family.	0.736
KB13_48	KB13_472	KB13_48	KB13_472	Peptidase U62, modulator of DNA gyrase; [R] COG0312 Predicted Zn-dependent proteases and their inactivated homologs.	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	0.602
obg	KB13_472	KB13_1074	KB13_472	GTP-binding protein Obg/CgtA; An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control. Belongs to the TRAFAC class OBG-HflX-like GTPase superfamily. OBG GTPase family.	[S] COG3028 Uncharacterized protein conserved in bacteria; Belongs to the UPF0307 family.	0.579
obg	rluD	KB13_1074	KB13_562	GTP-binding protein Obg/CgtA; An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control. Belongs to the TRAFAC class OBG-HflX-like GTPase superfamily. OBG GTPase family.	Ribosomal large subunit pseudouridine synthase D; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	0.821
obg	rplD	KB13_1074	KB13_1118	GTP-binding protein Obg/CgtA; An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control. Belongs to the TRAFAC class OBG-HflX-like GTPase superfamily. OBG GTPase family.	Ribosomal protein L4/L1 family; Forms part of the polypeptide exit tunnel.	0.804
obg	rplO	KB13_1074	KB13_1052	GTP-binding protein Obg/CgtA; An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control. Belongs to the TRAFAC class OBG-HflX-like GTPase superfamily. OBG GTPase family.	Ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.827
obg	rplU	KB13_1074	KB13_435	GTP-binding protein Obg/CgtA; An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control. Belongs to the TRAFAC class OBG-HflX-like GTPase superfamily. OBG GTPase family.	Ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family.	0.958
obg	rplX	KB13_1074	KB13_1042	GTP-binding protein Obg/CgtA; An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control. Belongs to the TRAFAC class OBG-HflX-like GTPase superfamily. OBG GTPase family.	Ribosomal protein L24; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.	0.808
obg	rplY	KB13_1074	KB13_1001	GTP-binding protein Obg/CgtA; An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control. Belongs to the TRAFAC class OBG-HflX-like GTPase superfamily. OBG GTPase family.	Ribosomal protein L25, Ctc-form; This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. Belongs to the bacterial ribosomal protein bL25 family. CTC subfamily.	0.816
obg	rpmF	KB13_1074	KB13_73	GTP-binding protein Obg/CgtA; An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control. Belongs to the TRAFAC class OBG-HflX-like GTPase superfamily. OBG GTPase family.	[J] COG0333 Ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family.	0.819
obg	rpmG	KB13_1074	KB13_482	GTP-binding protein Obg/CgtA; An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control. Belongs to the TRAFAC class OBG-HflX-like GTPase superfamily. OBG GTPase family.	[J] COG0267 Ribosomal protein L33; Belongs to the bacterial ribosomal protein bL33 family.	0.803