(94 nodes) Regulation of mRNA catabolic process network (Papaver somniferum)

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:
	C5167_015021	Sm domain-containing protein. (105 aa)
	C5167_002164	PCRF domain-containing protein. (428 aa)
	C5167_001944	YTH domain-containing protein. (723 aa)
	C5167_003441	Uncharacterized protein. (606 aa)
	C5167_020832	Sm-like protein LSM2; Component of LSM protein complexes, which are involved in RNA processing. (93 aa)
	C5167_044919	NOT2_3_5 domain-containing protein. (636 aa)
	C5167_045883	RRM domain-containing protein. (696 aa)
	C5167_045686	Not3 domain-containing protein. (770 aa)
	C5167_045671	YTH domain-containing protein. (717 aa)
	C5167_046184	Uncharacterized protein. (95 aa)
	C5167_046020	Uncharacterized protein. (606 aa)
	C5167_046548	Uncharacterized protein. (154 aa)
	C5167_046903	Uncharacterized protein. (280 aa)
	C5167_025399	CNOT1_CAF1_bind domain-containing protein. (68 aa)
	C5167_025552	Uncharacterized protein. (2240 aa)
	C5167_008696	Uncharacterized protein. (798 aa)
	C5167_008494	Polyadenylate-binding protein; Binds the poly(A) tail of mRNA. Belongs to the polyadenylate-binding protein type-1 family. (652 aa)
	C5167_009113	Uncharacterized protein. (254 aa)
	C5167_009536	Uncharacterized protein. (654 aa)
	C5167_009557	Uncharacterized protein. (346 aa)
	C5167_010321	Uncharacterized protein. (342 aa)
	C5167_011617	Uncharacterized protein. (125 aa)
	C5167_011308	YTH domain-containing protein. (604 aa)
	C5167_011542	Uncharacterized protein. (966 aa)
	C5167_031986	Uncharacterized protein. (825 aa)
	C5167_031663	Uncharacterized protein. (1095 aa)
	C5167_032344	Uncharacterized protein. (413 aa)
	C5167_032929	Uncharacterized protein. (187 aa)
	C5167_032052	Uncharacterized protein. (93 aa)
	C5167_033967	RRM domain-containing protein. (198 aa)
	C5167_032852	Uncharacterized protein. (93 aa)
	C5167_033577	Nudix hydrolase domain-containing protein. (320 aa)
	C5167_048386	NOT2_3_5 domain-containing protein. (624 aa)
	C5167_048887	YTH domain-containing protein. (541 aa)
	C5167_048260	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1535 aa)
	C5167_049505	Uncharacterized protein. (160 aa)
	C5167_048610	PAP-associated domain-containing protein. (409 aa)
	C5167_049943	Uncharacterized protein. (360 aa)
	C5167_048941	Uncharacterized protein. (442 aa)
	C5167_049923	Uncharacterized protein. (93 aa)
	C5167_050951	Uncharacterized protein. (217 aa)
	C5167_000431	Nudix hydrolase domain-containing protein. (303 aa)
	C5167_000950	Uncharacterized protein. (145 aa)
	C5167_000626	NOT2_3_5 domain-containing protein. (660 aa)
	C5167_001141	Nudix hydrolase domain-containing protein. (327 aa)
	C5167_001171	YTH domain-containing protein. (151 aa)
	C5167_002529	Uncharacterized protein. (273 aa)
	C5167_001423	Uncharacterized protein. (117 aa)
	C5167_002780	Uncharacterized protein. (367 aa)
	C5167_001960	Not3 domain-containing protein. (756 aa)
	C5167_002545	Uncharacterized protein. (373 aa)
	C5167_025395	DUF3819 domain-containing protein. (87 aa)
	C5167_025396	Uncharacterized protein. (356 aa)
	C5167_025400	Not1 domain-containing protein. (339 aa)
	C5167_024407	YTH domain-containing protein. (449 aa)
	C5167_023658	Uncharacterized protein. (287 aa)
	C5167_023740	Uncharacterized protein. (349 aa)
	C5167_022865	Uncharacterized protein. (310 aa)
	C5167_023691	Uncharacterized protein. (93 aa)
	C5167_007147	Uncharacterized protein. (205 aa)
	C5167_006465	KH_dom_type_1 domain-containing protein. (242 aa)
	C5167_005371	Uncharacterized protein. (427 aa)
	C5167_004725	NOT2_3_5 domain-containing protein. (422 aa)
	C5167_015686	RRM domain-containing protein. (683 aa)
	C5167_004727	NOT2_3_5 domain-containing protein. (621 aa)
	C5167_014181	Uncharacterized protein. (125 aa)
	C5167_014114	Polyadenylate-binding protein; Binds the poly(A) tail of mRNA. Belongs to the polyadenylate-binding protein type-1 family. (645 aa)
	C5167_014128	RPOL4c domain-containing protein. (129 aa)
	C5167_013431	YTH domain-containing protein. (439 aa)
	C5167_014301	YTH domain-containing protein. (700 aa)
	C5167_012906	YTH domain-containing protein. (687 aa)
	C5167_012294	Uncharacterized protein. (2228 aa)
	C5167_012560	F-box domain-containing protein. (1102 aa)
	C5167_012763	Uncharacterized protein. (218 aa)
	C5167_012107	Uncharacterized protein. (216 aa)
	C5167_020616	Uncharacterized protein. (197 aa)
	C5167_017748	DIS3-like exonuclease 2; 3'-5'-exoribonuclease that specifically recognizes RNAs polyuridylated at their 3' end and mediates their degradation. Component of an exosome-independent RNA degradation pathway that mediates degradation of cytoplasmic mRNAs that have been deadenylated and subsequently uridylated at their 3'. (1123 aa)
	C5167_017648	RPOL4c domain-containing protein. (116 aa)
	C5167_017641	Polyadenylate-binding protein; Binds the poly(A) tail of mRNA. Belongs to the polyadenylate-binding protein type-1 family. (643 aa)
	C5167_040018	HTH La-type RNA-binding domain-containing protein. (929 aa)
	C5167_041297	Uncharacterized protein. (937 aa)
	C5167_039787	YTH domain-containing protein. (646 aa)
	C5167_041186	Uncharacterized protein. (196 aa)
	C5167_040150	Uncharacterized protein. (177 aa)
	C5167_039425	Uncharacterized protein. (171 aa)
	C5167_040672	CNOT1_TTP_bind domain-containing protein. (215 aa)
	C5167_039048	Uncharacterized protein. (690 aa)
	C5167_039035	Uncharacterized protein. (767 aa)
	LSM3	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA. (96 aa)
	C5167_037763	Uncharacterized protein. (355 aa)
	C5167_036995	Polyadenylate-binding protein; Binds the poly(A) tail of mRNA. Belongs to the polyadenylate-binding protein type-1 family. (650 aa)
	C5167_037041	PABC domain-containing protein. (274 aa)
	C5167_036817	Uncharacterized protein. (839 aa)
	C5167_036589	Uncharacterized protein. (832 aa)

Your Current Organism:

Papaver somniferum

NCBI taxonomy Id: 3469
Other names: P. somniferum, Papaver somniferum L., Papaver somniferum convar. nigrum (Hayne) Alef., opium poppy

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
C5167_000431	C5167_002529	A0A4Y7KU27	A0A4Y7KYF5	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.672
C5167_000431	C5167_002545	A0A4Y7KU27	A0A4Y7KZX6	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.964
C5167_000431	C5167_002780	A0A4Y7KU27	A0A4Y7KZ47	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.963
C5167_000431	C5167_006465	A0A4Y7KU27	A0A4Y7JGI5	Nudix hydrolase domain-containing protein.	KH_dom_type_1 domain-containing protein.	0.695
C5167_000431	C5167_007147	A0A4Y7KU27	A0A4Y7JH25	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.673
C5167_000431	C5167_009557	A0A4Y7KU27	A0A4Y7K1N4	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.810
C5167_000431	C5167_011617	A0A4Y7KU27	A0A4Y7K4T5	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.673
C5167_000431	C5167_014181	A0A4Y7KU27	A0A4Y7J6R3	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.836
C5167_000431	C5167_015021	A0A4Y7KU27	A0A4Y7J982	Nudix hydrolase domain-containing protein.	Sm domain-containing protein.	0.840
C5167_000431	C5167_017748	A0A4Y7KU27	A0A4Y7IPA6	Nudix hydrolase domain-containing protein.	DIS3-like exonuclease 2; 3'-5'-exoribonuclease that specifically recognizes RNAs polyuridylated at their 3' end and mediates their degradation. Component of an exosome-independent RNA degradation pathway that mediates degradation of cytoplasmic mRNAs that have been deadenylated and subsequently uridylated at their 3'.	0.801
C5167_000431	C5167_020832	A0A4Y7KU27	A0A4Y7L7W5	Nudix hydrolase domain-containing protein.	Sm-like protein LSM2; Component of LSM protein complexes, which are involved in RNA processing.	0.908
C5167_000431	C5167_022865	A0A4Y7KU27	A0A4Y7JM58	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.672
C5167_000431	C5167_023658	A0A4Y7KU27	A0A4Y7JPM8	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.672
C5167_000431	C5167_023740	A0A4Y7KU27	A0A4Y7JN42	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.672
C5167_000431	C5167_032344	A0A4Y7KU27	A0A4Y7K8U0	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.964
C5167_000431	C5167_032929	A0A4Y7KU27	A0A4Y7K8U6	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.672
C5167_000431	C5167_039048	A0A4Y7KU27	A0A4Y7IF02	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.810
C5167_000431	C5167_046548	A0A4Y7KU27	A0A4Y7LGT1	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.695
C5167_000431	C5167_046903	A0A4Y7KU27	A0A4Y7LHX2	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.672
C5167_000431	C5167_048941	A0A4Y7KU27	A0A4Y7KMR3	Nudix hydrolase domain-containing protein.	Uncharacterized protein.	0.797