(14 nodes) snRNA binding network (Schizosaccharomyces pombe)

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:
	usp102	U1 small nuclear ribonucleoprotein usp102; Involved in nuclear mRNA splicing. (249 aa)
	usp101	U1 small nuclear ribonucleoprotein 70 kDa homolog; Involved in nuclear mRNA splicing (By similarity). Essential for growth. (261 aa)
	spp42	Pre-mRNA-splicing factor spp42; Involved in pre-mRNA splicing. May be involved in endoplasmic reticulum-associated protein degradation (ERAD) and required for growth at low and high temperatures (By similarity). Required for pre- spliceosome formation, which is the first step of pre-mRNA splicing. This protein is associated with snRNP U5. Has a role in branch site-3' splice site selection. Associates with the branch site-3' splice 3'- exon region. (2363 aa)
	lsm4	Probable U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA. (121 aa)
	cwf5	Pre-mRNA-splicing factor cwf5; Facilitates the cooperative formation of U2/U6 helix II in association with stem II in the spliceosome. Binds to RNA (By similarity). Involved in pre-mRNA splicing; Belongs to the RRM SLT11 family. (354 aa)
	cwf10	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily. (984 aa)
	cwf2	Pre-mRNA-splicing factor cwf2; Involved in the first step of pre-mRNA splicing. Required for cell growth and cell cycle control. Plays a role in the levels of the U1, U4, U5 and U6 snRNAs and the maintenance of the U4/U6 snRNA complex. May provide the link between the 'nineteen complex' NTC spliceosome protein complex and the spliceosome through the U6 snRNA. Associates predominantly with U6 snRNAs in assembled active spliceosomes. Binds directly to the internal stem-loop (ISL) domain of the U6 snRNA and to the pre-mRNA intron near the 5' splice site during the activation and catalytic [...] (388 aa)
	msl1	Probable U2 small nuclear ribonucleoprotein B'; Involved in pre-mRNA splicing. This protein is associated with snRNP U2. It binds stem loop IV of U2 snRNA (By similarity). (111 aa)
	usp103	U1 small nuclear ribonucleoprotein C; Component of the spliceosomal U1 snRNP, which is essential for recognition of the pre-mRNA 5' splice-site and the subsequent assembly of the spliceosome. usp103/U1-C is directly involved in initial 5' splice-site recognition for both constitutive and regulated alternative splicing. The interaction with the 5' splice-site seems to precede base-pairing between the pre-mRNA and the U1 snRNA. Stimulates commitment or early (E) complex formation by stabilizing the base pairing of the 5' end of the U1 snRNA and the 5' splice-site region. (182 aa)
	lea1	U2 small nuclear ribonucleoprotein A; Involved in pre-mRNA splicing. This protein is associated with sn-RNP U2. It helps the A' protein to bind stem loop IV of U2 snRNA (By similarity). (239 aa)
	prp24	Uncharacterized RNA-binding protein C1861.04c. (1014 aa)
	rna4	Uncharacterized WD repeat-containing protein C227.12. (462 aa)
	prp12	Pre-mRNA-splicing factor prp12; Involved in mRNA splicing and G2/M transition. (1206 aa)
	bmc1	Probable RNA methyltransferase C2A9.10; Probable RNA methyltransferase. (268 aa)

Your Current Organism:

Schizosaccharomyces pombe

NCBI taxonomy Id: 284812
Other names: S. pombe 972h-, Schizosaccharomyces pombe 972h-

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
bmc1	lsm4	Q9Y7L2	O14352	Probable RNA methyltransferase C2A9.10; Probable RNA methyltransferase.	Probable U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.628
bmc1	prp24	Q9Y7L2	Q9USY2	Probable RNA methyltransferase C2A9.10; Probable RNA methyltransferase.	Uncharacterized RNA-binding protein C1861.04c.	0.708
bmc1	rna4	Q9Y7L2	Q9UTC7	Probable RNA methyltransferase C2A9.10; Probable RNA methyltransferase.	Uncharacterized WD repeat-containing protein C227.12.	0.499
cwf10	cwf2	O94316	P87126	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	Pre-mRNA-splicing factor cwf2; Involved in the first step of pre-mRNA splicing. Required for cell growth and cell cycle control. Plays a role in the levels of the U1, U4, U5 and U6 snRNAs and the maintenance of the U4/U6 snRNA complex. May provide the link between the 'nineteen complex' NTC spliceosome protein complex and the spliceosome through the U6 snRNA. Associates predominantly with U6 snRNAs in assembled active spliceosomes. Binds directly to the internal stem-loop (ISL) domain of the U6 snRNA and to the pre-mRNA intron near the 5' splice site during the activation and catalytic [...]	0.999
cwf10	cwf5	O94316	O59800	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	Pre-mRNA-splicing factor cwf5; Facilitates the cooperative formation of U2/U6 helix II in association with stem II in the spliceosome. Binds to RNA (By similarity). Involved in pre-mRNA splicing; Belongs to the RRM SLT11 family.	0.999
cwf10	lea1	O94316	Q9USX8	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	U2 small nuclear ribonucleoprotein A; Involved in pre-mRNA splicing. This protein is associated with sn-RNP U2. It helps the A' protein to bind stem loop IV of U2 snRNA (By similarity).	0.999
cwf10	lsm4	O94316	O14352	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	Probable U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.977
cwf10	msl1	O94316	Q7LL14	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	Probable U2 small nuclear ribonucleoprotein B'; Involved in pre-mRNA splicing. This protein is associated with snRNP U2. It binds stem loop IV of U2 snRNA (By similarity).	0.999
cwf10	prp12	O94316	Q9UTT2	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	Pre-mRNA-splicing factor prp12; Involved in mRNA splicing and G2/M transition.	0.994
cwf10	prp24	O94316	Q9USY2	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	Uncharacterized RNA-binding protein C1861.04c.	0.687
cwf10	rna4	O94316	Q9UTC7	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	Uncharacterized WD repeat-containing protein C227.12.	0.994
cwf10	spp42	O94316	O14187	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	Pre-mRNA-splicing factor spp42; Involved in pre-mRNA splicing. May be involved in endoplasmic reticulum-associated protein degradation (ERAD) and required for growth at low and high temperatures (By similarity). Required for pre- spliceosome formation, which is the first step of pre-mRNA splicing. This protein is associated with snRNP U5. Has a role in branch site-3' splice site selection. Associates with the branch site-3' splice 3'- exon region.	0.999
cwf10	usp101	O94316	O13829	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	U1 small nuclear ribonucleoprotein 70 kDa homolog; Involved in nuclear mRNA splicing (By similarity). Essential for growth.	0.911
cwf10	usp102	O94316	O74968	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	U1 small nuclear ribonucleoprotein usp102; Involved in nuclear mRNA splicing.	0.796
cwf10	usp103	O94316	Q9P794	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	U1 small nuclear ribonucleoprotein C; Component of the spliceosomal U1 snRNP, which is essential for recognition of the pre-mRNA 5' splice-site and the subsequent assembly of the spliceosome. usp103/U1-C is directly involved in initial 5' splice-site recognition for both constitutive and regulated alternative splicing. The interaction with the 5' splice-site seems to precede base-pairing between the pre-mRNA and the U1 snRNA. Stimulates commitment or early (E) complex formation by stabilizing the base pairing of the 5' end of the U1 snRNA and the 5' splice-site region.	0.902
cwf2	cwf10	P87126	O94316	Pre-mRNA-splicing factor cwf2; Involved in the first step of pre-mRNA splicing. Required for cell growth and cell cycle control. Plays a role in the levels of the U1, U4, U5 and U6 snRNAs and the maintenance of the U4/U6 snRNA complex. May provide the link between the 'nineteen complex' NTC spliceosome protein complex and the spliceosome through the U6 snRNA. Associates predominantly with U6 snRNAs in assembled active spliceosomes. Binds directly to the internal stem-loop (ISL) domain of the U6 snRNA and to the pre-mRNA intron near the 5' splice site during the activation and catalytic [...]	Pre-mRNA-splicing factor cwf10; Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily.	0.999
cwf2	cwf5	P87126	O59800	Pre-mRNA-splicing factor cwf2; Involved in the first step of pre-mRNA splicing. Required for cell growth and cell cycle control. Plays a role in the levels of the U1, U4, U5 and U6 snRNAs and the maintenance of the U4/U6 snRNA complex. May provide the link between the 'nineteen complex' NTC spliceosome protein complex and the spliceosome through the U6 snRNA. Associates predominantly with U6 snRNAs in assembled active spliceosomes. Binds directly to the internal stem-loop (ISL) domain of the U6 snRNA and to the pre-mRNA intron near the 5' splice site during the activation and catalytic [...]	Pre-mRNA-splicing factor cwf5; Facilitates the cooperative formation of U2/U6 helix II in association with stem II in the spliceosome. Binds to RNA (By similarity). Involved in pre-mRNA splicing; Belongs to the RRM SLT11 family.	0.999
cwf2	lea1	P87126	Q9USX8	Pre-mRNA-splicing factor cwf2; Involved in the first step of pre-mRNA splicing. Required for cell growth and cell cycle control. Plays a role in the levels of the U1, U4, U5 and U6 snRNAs and the maintenance of the U4/U6 snRNA complex. May provide the link between the 'nineteen complex' NTC spliceosome protein complex and the spliceosome through the U6 snRNA. Associates predominantly with U6 snRNAs in assembled active spliceosomes. Binds directly to the internal stem-loop (ISL) domain of the U6 snRNA and to the pre-mRNA intron near the 5' splice site during the activation and catalytic [...]	U2 small nuclear ribonucleoprotein A; Involved in pre-mRNA splicing. This protein is associated with sn-RNP U2. It helps the A' protein to bind stem loop IV of U2 snRNA (By similarity).	0.999
cwf2	msl1	P87126	Q7LL14	Pre-mRNA-splicing factor cwf2; Involved in the first step of pre-mRNA splicing. Required for cell growth and cell cycle control. Plays a role in the levels of the U1, U4, U5 and U6 snRNAs and the maintenance of the U4/U6 snRNA complex. May provide the link between the 'nineteen complex' NTC spliceosome protein complex and the spliceosome through the U6 snRNA. Associates predominantly with U6 snRNAs in assembled active spliceosomes. Binds directly to the internal stem-loop (ISL) domain of the U6 snRNA and to the pre-mRNA intron near the 5' splice site during the activation and catalytic [...]	Probable U2 small nuclear ribonucleoprotein B'; Involved in pre-mRNA splicing. This protein is associated with snRNP U2. It binds stem loop IV of U2 snRNA (By similarity).	0.992
cwf2	prp12	P87126	Q9UTT2	Pre-mRNA-splicing factor cwf2; Involved in the first step of pre-mRNA splicing. Required for cell growth and cell cycle control. Plays a role in the levels of the U1, U4, U5 and U6 snRNAs and the maintenance of the U4/U6 snRNA complex. May provide the link between the 'nineteen complex' NTC spliceosome protein complex and the spliceosome through the U6 snRNA. Associates predominantly with U6 snRNAs in assembled active spliceosomes. Binds directly to the internal stem-loop (ISL) domain of the U6 snRNA and to the pre-mRNA intron near the 5' splice site during the activation and catalytic [...]	Pre-mRNA-splicing factor prp12; Involved in mRNA splicing and G2/M transition.	0.890