(79 nodes) RNA Polymerase I Promoter Opening, and DNA methylation on cytosine network (Pan paniscus)

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:
	LOC100985978	Histone H3; Belongs to the histone H3 family. (136 aa)
	H2AC6	Histone H2A; Belongs to the histone H2A family. (130 aa)
	LOC100975795	Histone domain-containing protein; Belongs to the histone H2B family. (126 aa)
	LOC103783476	Histone H4; Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling. (103 aa)
	LOC112440134	Histone H4. (103 aa)
	H4C5	Histone H4. (103 aa)
	H3-3A	Histone H3; Belongs to the histone H3 family. (136 aa)
	LOC100981824	Histone H4. (103 aa)
	H2BC5	Histone H2B; Belongs to the histone H2B family. (126 aa)
	H2AC14	Histone H2A; Belongs to the histone H2A family. (128 aa)
	H2AW	Histone H2A; Belongs to the histone H2A family. (130 aa)
	LOC112440134-2	Histone H4. (103 aa)
	ENSPPAP00000003519	Uncharacterized protein. (858 aa)
	H2BC10	Histone H2B; Belongs to the histone H2B family. (126 aa)
	LOC112440134-3	Histone H4. (103 aa)
	ENSPPAP00000003652	Histone H2A; Belongs to the histone H2A family. (129 aa)
	LOC100976584	Histone H4. (103 aa)
	LOC100985978-6	Histone H3.1-like. (136 aa)
	LOC100977926	Uncharacterized LOC100977926. (103 aa)
	LOC112440134-4	Histone H4. (103 aa)
	LOC100985978-7	Histone H3.1. (136 aa)
	H2AC16	Histone H2A; Belongs to the histone H2A family. (130 aa)
	H2BC1	Histone H2B; Belongs to the histone H2B family. (127 aa)
	LOC100992212	Histone H4. (103 aa)
	H3-4	Histone cluster 3 H3. (136 aa)
	H2BC18	Histone H2B; Belongs to the histone H2B family. (126 aa)
	LOC100980195	Histone H2A; Belongs to the histone H2A family. (130 aa)
	LOC100985450	Histone H2B type 1. (126 aa)
	LOC100987642	Histone H2B; Belongs to the histone H2B family. (126 aa)
	LOC100979846	Histone H2B type 1. (126 aa)
	LOC100992822	Histone H2A; Belongs to the histone H2A family. (115 aa)
	H2AC20	Histone H2A; Belongs to the histone H2A family. (129 aa)
	HDAC8	Histone deacetylase 8; Responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Histone deacetylases act via the formation of large multiprotein complexes. (396 aa)
	LOC100971924	Histone H3; Belongs to the histone H3 family. (136 aa)
	H2BC9	Histone H2B; Belongs to the histone H2B family. (126 aa)
	H2BC11	Histone H2B; Belongs to the histone H2B family. (126 aa)
	LOC100981154	Histone H2B; Belongs to the histone H2B family. (126 aa)
	H2AJ	Histone H2A; Belongs to the histone H2A family. (129 aa)
	LOC100982169	Histone H2A type 1. (130 aa)
	H2BC13	Histone H2B; Belongs to the histone H2B family. (126 aa)
	LOC100992550	Histone H2A type 1-B/E. (130 aa)
	LOC100985433	Histone H2B; Belongs to the histone H2B family. (126 aa)
	H2AC7	Histone H2A; Belongs to the histone H2A family. (130 aa)
	H2BC14	Histone H2B; Belongs to the histone H2B family. (126 aa)
	H2BC3	Histone H2B; Belongs to the histone H2B family. (126 aa)
	H2BU1	Histone H2B; Belongs to the histone H2B family. (126 aa)
	LOC100988670	Histone H2A type 1. (130 aa)
	H2BC6	Histone H2B type 1. (126 aa)
	LOC100985978-9	Histone H3.1. (136 aa)
	LOC112440134-5	Histone H4. (103 aa)
	SETD2	SET domain containing 2, histone lysine methyltransferase. (2536 aa)
	ENSPPAP00000008195	SET domain-containing protein. (347 aa)
	DNMT1	DNA (cytosine-5)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family. (1637 aa)
	MACROH2A2	Core histone macro-H2A; Variant histone H2A which replaces conventional H2A in a subset of nucleosomes. (372 aa)
	CBX5	Chromobox 5. (191 aa)
	MACROH2A1	Core histone macro-H2A; Variant histone H2A which replaces conventional H2A in a subset of nucleosomes. (372 aa)
	KDM6A	Lysine demethylase 6A. (1453 aa)
	EHMT2	Euchromatic histone lysine methyltransferase 2. (1278 aa)
	LOC100971924-2	Histone H3. (136 aa)
	LOC100971924-3	Histone H3. (136 aa)
	KDM6B	Lysine demethylase 6B. (1680 aa)
	EHMT1	Euchromatic histone lysine methyltransferase 1. (1298 aa)
	LOC100985638	Histone H2B; Belongs to the histone H2B family. (167 aa)
	CENPC	Centromere protein C. (934 aa)
	ENSPPAP00000021597	Histone domain-containing protein. (161 aa)
	DNMT3B	DNA methyltransferase 3 beta; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family. (853 aa)
	L3MBTL1	Uncharacterized protein. (840 aa)
	H2AZ2	Histone H2A; Belongs to the histone H2A family. (128 aa)
	HDAC11	Histone deacetylase 11. (320 aa)
	DNMT3A	DNA methyltransferase 3 alpha; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family. (912 aa)
	ENSPPAP00000032178	Histone H2B; Belongs to the histone H2B family. (138 aa)
	CHD1L	Chromodomain helicase DNA binding protein 1 like. (921 aa)
	ENSPPAP00000033492	Chromo domain-containing protein. (217 aa)
	KDM4A	Uncharacterized protein. (1064 aa)
	CBX3	Uncharacterized protein. (183 aa)
	HDAC10	Histone deacetylase 10. (669 aa)
	DNMT3L	PHD-type domain-containing protein. (387 aa)
	HDAC7	Histone deacetylase; Responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. (1011 aa)
	CHD1	Chromodomain helicase DNA binding protein 1. (1699 aa)

Your Current Organism:

Pan paniscus

NCBI taxonomy Id: 9597
Other names: P. paniscus, bonobo, pygmy chimpanzee

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
CBX3	CBX5	ENSPPAP00000035135	ENSPPAP00000010215	Uncharacterized protein.	Chromobox 5.	0.887
CBX3	DNMT1	ENSPPAP00000035135	ENSPPAP00000008604	Uncharacterized protein.	DNA (cytosine-5)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	0.617
CBX3	DNMT3B	ENSPPAP00000035135	ENSPPAP00000022800	Uncharacterized protein.	DNA methyltransferase 3 beta; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	0.456
CBX3	EHMT1	ENSPPAP00000035135	ENSPPAP00000019989	Uncharacterized protein.	Euchromatic histone lysine methyltransferase 1.	0.736
CBX3	EHMT2	ENSPPAP00000035135	ENSPPAP00000015818	Uncharacterized protein.	Euchromatic histone lysine methyltransferase 2.	0.967
CBX3	ENSPPAP00000021597	ENSPPAP00000035135	ENSPPAP00000021597	Uncharacterized protein.	Histone domain-containing protein.	0.873
CBX3	ENSPPAP00000033492	ENSPPAP00000035135	ENSPPAP00000033492	Uncharacterized protein.	Chromo domain-containing protein.	0.683
CBX3	H2AC20	ENSPPAP00000035135	ENSPPAP00000005488	Uncharacterized protein.	Histone H2A; Belongs to the histone H2A family.	0.422
CBX3	H3-3A	ENSPPAP00000035135	ENSPPAP00000000859	Uncharacterized protein.	Histone H3; Belongs to the histone H3 family.	0.809
CBX3	H3-4	ENSPPAP00000035135	ENSPPAP00000004803	Uncharacterized protein.	Histone cluster 3 H3.	0.960
CBX3	L3MBTL1	ENSPPAP00000035135	ENSPPAP00000023720	Uncharacterized protein.	Uncharacterized protein.	0.722
CBX3	LOC100971924	ENSPPAP00000035135	ENSPPAP00000005687	Uncharacterized protein.	Histone H3; Belongs to the histone H3 family.	0.707
CBX3	LOC100971924-2	ENSPPAP00000035135	ENSPPAP00000019009	Uncharacterized protein.	Histone H3.	0.707
CBX3	LOC100971924-3	ENSPPAP00000035135	ENSPPAP00000019349	Uncharacterized protein.	Histone H3.	0.707
CBX3	LOC100985978	ENSPPAP00000035135	ENSPPAP00000000264	Uncharacterized protein.	Histone H3; Belongs to the histone H3 family.	0.422
CBX3	LOC100985978-6	ENSPPAP00000035135	ENSPPAP00000003722	Uncharacterized protein.	Histone H3.1-like.	0.873
CBX3	LOC100985978-7	ENSPPAP00000035135	ENSPPAP00000004122	Uncharacterized protein.	Histone H3.1.	0.446
CBX3	LOC100985978-9	ENSPPAP00000035135	ENSPPAP00000007027	Uncharacterized protein.	Histone H3.1.	0.422
CBX5	CBX3	ENSPPAP00000010215	ENSPPAP00000035135	Chromobox 5.	Uncharacterized protein.	0.887
CBX5	CHD1	ENSPPAP00000010215	ENSPPAP00000041566	Chromobox 5.	Chromodomain helicase DNA binding protein 1.	0.428