Cpap_2016 protein (Ruminiclostridium papyrosolvens DSM 2782)

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

Cpap_2016

Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (303 aa)

Predicted Functional Partners:

Cpap_2017

0.794

rplC

0.770

rplM

0.763

rplO

0.743

rplU

0.715

obg

0.710

Cpap_2453

0.693

rsfS

0.688

rplQ

0.679

mnmE

0.670

Your Current Organism:

Ruminiclostridium papyrosolvens DSM 2782

NCBI taxonomy Id: 588581
Other names: Clostridium papyrosolvens DSM 2782, R. papyrosolvens DSM 2782

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
Cpap_2016	Cpap_2017	Cpap_2016	Cpap_2017	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	PFAM: Nucleotidyl transferase; phosphoglucomutase/phosphomannomutase alpha/beta/alpha domain I; transferase hexapeptide repeat containing protein; KEGG: cce:Ccel_0348 nucleotidyl transferase.	0.794
Cpap_2016	Cpap_2453	Cpap_2016	Cpap_2453	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	KEGG: cce:Ccel_3320 RNA methyltransferase, TrmH family, group 3; TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.	0.693
Cpap_2016	mnmE	Cpap_2016	Cpap_2075	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	tRNA modification GTPase TrmE; Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. TrmE GTPase family.	0.670
Cpap_2016	obg	Cpap_2016	Cpap_3429	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA 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.	0.710
Cpap_2016	rplC	Cpap_2016	Cpap_1368	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	0.770
Cpap_2016	rplM	Cpap_2016	Cpap_1332	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	Ribosomal protein L13; This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.	0.763
Cpap_2016	rplO	Cpap_2016	Cpap_1349	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	Ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.743
Cpap_2016	rplQ	Cpap_2016	Cpap_1338	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	KEGG: cce:Ccel_0788 50S ribosomal protein L17; TIGRFAM: ribosomal protein L17; PFAM: ribosomal protein L17.	0.679
Cpap_2016	rplU	Cpap_2016	Cpap_3426	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	Ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family.	0.715
Cpap_2016	rsfS	Cpap_2016	Cpap_3522	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	Iojap-like protein; Functions as a ribosomal silencing factor. Interacts with ribosomal protein L14 (rplN), blocking formation of intersubunit bridge B8. Prevents association of the 30S and 50S ribosomal subunits and the formation of functional ribosomes, thus repressing translation.	0.688
Cpap_2017	Cpap_2016	Cpap_2017	Cpap_2016	PFAM: Nucleotidyl transferase; phosphoglucomutase/phosphomannomutase alpha/beta/alpha domain I; transferase hexapeptide repeat containing protein; KEGG: cce:Ccel_0348 nucleotidyl transferase.	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	0.794
Cpap_2453	Cpap_2016	Cpap_2453	Cpap_2016	KEGG: cce:Ccel_3320 RNA methyltransferase, TrmH family, group 3; TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.	Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family.	0.693
Cpap_2453	mnmE	Cpap_2453	Cpap_2075	KEGG: cce:Ccel_3320 RNA methyltransferase, TrmH family, group 3; TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.	tRNA modification GTPase TrmE; Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. TrmE GTPase family.	0.799
Cpap_2453	obg	Cpap_2453	Cpap_3429	KEGG: cce:Ccel_3320 RNA methyltransferase, TrmH family, group 3; TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH 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.	0.505
Cpap_2453	rplC	Cpap_2453	Cpap_1368	KEGG: cce:Ccel_3320 RNA methyltransferase, TrmH family, group 3; TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	0.791
Cpap_2453	rplM	Cpap_2453	Cpap_1332	KEGG: cce:Ccel_3320 RNA methyltransferase, TrmH family, group 3; TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.	Ribosomal protein L13; This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.	0.835
Cpap_2453	rplO	Cpap_2453	Cpap_1349	KEGG: cce:Ccel_3320 RNA methyltransferase, TrmH family, group 3; TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.	Ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.763
Cpap_2453	rplQ	Cpap_2453	Cpap_1338	KEGG: cce:Ccel_3320 RNA methyltransferase, TrmH family, group 3; TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.	KEGG: cce:Ccel_0788 50S ribosomal protein L17; TIGRFAM: ribosomal protein L17; PFAM: ribosomal protein L17.	0.762
Cpap_2453	rplU	Cpap_2453	Cpap_3426	KEGG: cce:Ccel_3320 RNA methyltransferase, TrmH family, group 3; TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.	Ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family.	0.764
Cpap_2453	rsfS	Cpap_2453	Cpap_3522	KEGG: cce:Ccel_3320 RNA methyltransferase, TrmH family, group 3; TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.	Iojap-like protein; Functions as a ribosomal silencing factor. Interacts with ribosomal protein L14 (rplN), blocking formation of intersubunit bridge B8. Prevents association of the 30S and 50S ribosomal subunits and the formation of functional ribosomes, thus repressing translation.	0.791