(34 nodes) Heterochromatin assembly network (Oryzias latipes)

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:
	LOC101172482	Methyl-CpG binding domain protein 3a. (350 aa)
	pole3	CBFD_NFYB_HMF domain-containing protein. (148 aa)
	hells	Helicase, lymphoid specific. (853 aa)
	lmnb2	Lamin B2; Belongs to the intermediate filament family. (579 aa)
	rrp8	Ribosomal RNA-processing protein 8; Probable methyltransferase required to silence rDNA. Belongs to the methyltransferase superfamily. RRP8 family. (569 aa)
	dot1l	Histone-lysine N-methyltransferase, H3 lysine-79 specific. (1578 aa)
	znfx1	Zinc finger, NFX1-type containing 1. (1904 aa)
	LOC101160250	Uncharacterized protein; Belongs to the intermediate filament family. (640 aa)
	LOC101156348	Protein phosphatase, Mg2+/Mn2+ dependent, 1Db. (566 aa)
	dicer1	Dicer 1, ribonuclease type III; Belongs to the helicase family. Dicer subfamily. (1888 aa)
	H2M6M6_ORYLA	Structural maintenance of chromosomes flexible hinge domain containing 1. (1384 aa)
	cenpv	Centromere protein V. (133 aa)
	sirt1	Deacetylase sirtuin-type domain-containing protein. (680 aa)
	sirt6	Sirtuin 6. (347 aa)
	LOC101163357	Uncharacterized protein. (244 aa)
	lmna	Lamin A; Belongs to the intermediate filament family. (634 aa)
	Rif1	Uncharacterized protein. (1520 aa)
	ppm1d	Protein phosphatase, Mg2+/Mn2+ dependent, 1Da. (544 aa)
	LOC101171458	BAH domain-containing protein. (892 aa)
	ezh2	Uncharacterized protein. (775 aa)
	hat1	Histone acetyltransferase type B catalytic subunit; Acetylates soluble but not nucleosomal histone H4 at 'Lys-5' (H4K5ac) and 'Lys-12' (H4K12ac) and, to a lesser extent, acetylates histone H2A at 'Lys-5' (H2AK5ac). Has intrinsic substrate specificity that modifies lysine in recognition sequence GXGKXG. (408 aa)
	dnmt1	DNA (cytosine-5)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family. (1496 aa)
	LOC101168266	Methyl-CpG binding domain protein 2. (386 aa)
	LOC101168604	Lamin L3; Belongs to the intermediate filament family. (704 aa)
	LOC101169900	SPT2 chromatin protein domain containing 1. (663 aa)
	bahd1	Bromo adjacent homology domain containing 1. (818 aa)
	rb1	Retinoblastoma 1. (916 aa)
	bend3	Uncharacterized protein. (747 aa)
	ezh1	Uncharacterized protein. (807 aa)
	LOC101155422	Uncharacterized protein. (115 aa)
	nrm	Nurim. (277 aa)
	LOC101175080	DNA (cytosine-5-)-methyltransferase 3 beta, duplicate a; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family. (1430 aa)
	fam172a	Family with sequence similarity 172 member A. (439 aa)
	LOC101167186	Methyl CpG binding protein 2. (1004 aa)

Your Current Organism:

Oryzias latipes

NCBI taxonomy Id: 8090
Other names: Japanese medaka, Japanese rice fish, O. latipes, Poecilia latipes, medaka

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
LOC101156348	ppm1d	ENSORLP00000012568	ENSORLP00000029022	Protein phosphatase, Mg2+/Mn2+ dependent, 1Db.	Protein phosphatase, Mg2+/Mn2+ dependent, 1Da.	0.903
LOC101163357	dnmt1	ENSORLP00000019083	ENSORLP00000034016	Uncharacterized protein.	DNA (cytosine-5)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	0.500
LOC101167186	LOC101172482	ENSORLP00000045247	ENSORLP00000026781	Methyl CpG binding protein 2.	Methyl-CpG binding domain protein 3a.	0.543
LOC101167186	LOC101175080	ENSORLP00000045247	ENSORLP00000043655	Methyl CpG binding protein 2.	DNA (cytosine-5-)-methyltransferase 3 beta, duplicate a; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	0.732
LOC101167186	dnmt1	ENSORLP00000045247	ENSORLP00000034016	Methyl CpG binding protein 2.	DNA (cytosine-5)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	0.824
LOC101168266	dnmt1	ENSORLP00000034270	ENSORLP00000034016	Methyl-CpG binding domain protein 2.	DNA (cytosine-5)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	0.508
LOC101171458	bahd1	ENSORLP00000029405	ENSORLP00000036664	BAH domain-containing protein.	Bromo adjacent homology domain containing 1.	0.571
LOC101171458	rrp8	ENSORLP00000029405	ENSORLP00000005226	BAH domain-containing protein.	Ribosomal RNA-processing protein 8; Probable methyltransferase required to silence rDNA. Belongs to the methyltransferase superfamily. RRP8 family.	0.540
LOC101172482	LOC101167186	ENSORLP00000026781	ENSORLP00000045247	Methyl-CpG binding domain protein 3a.	Methyl CpG binding protein 2.	0.543
LOC101172482	LOC101175080	ENSORLP00000026781	ENSORLP00000043655	Methyl-CpG binding domain protein 3a.	DNA (cytosine-5-)-methyltransferase 3 beta, duplicate a; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	0.587
LOC101172482	dnmt1	ENSORLP00000026781	ENSORLP00000034016	Methyl-CpG binding domain protein 3a.	DNA (cytosine-5)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	0.508
LOC101175080	LOC101167186	ENSORLP00000043655	ENSORLP00000045247	DNA (cytosine-5-)-methyltransferase 3 beta, duplicate a; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	Methyl CpG binding protein 2.	0.732
LOC101175080	LOC101172482	ENSORLP00000043655	ENSORLP00000026781	DNA (cytosine-5-)-methyltransferase 3 beta, duplicate a; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	Methyl-CpG binding domain protein 3a.	0.587
LOC101175080	dnmt1	ENSORLP00000043655	ENSORLP00000034016	DNA (cytosine-5-)-methyltransferase 3 beta, duplicate a; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	DNA (cytosine-5)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	0.928
LOC101175080	ezh1	ENSORLP00000043655	ENSORLP00000038250	DNA (cytosine-5-)-methyltransferase 3 beta, duplicate a; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	Uncharacterized protein.	0.726
LOC101175080	ezh2	ENSORLP00000043655	ENSORLP00000030078	DNA (cytosine-5-)-methyltransferase 3 beta, duplicate a; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	Uncharacterized protein.	0.726
LOC101175080	hells	ENSORLP00000043655	ENSORLP00000001208	DNA (cytosine-5-)-methyltransferase 3 beta, duplicate a; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.	Helicase, lymphoid specific.	0.448
bahd1	LOC101171458	ENSORLP00000036664	ENSORLP00000029405	Bromo adjacent homology domain containing 1.	BAH domain-containing protein.	0.571
bahd1	rrp8	ENSORLP00000036664	ENSORLP00000005226	Bromo adjacent homology domain containing 1.	Ribosomal RNA-processing protein 8; Probable methyltransferase required to silence rDNA. Belongs to the methyltransferase superfamily. RRP8 family.	0.540
dicer1	sirt1	ENSORLP00000013824	ENSORLP00000017142	Dicer 1, ribonuclease type III; Belongs to the helicase family. Dicer subfamily.	Deacetylase sirtuin-type domain-containing protein.	0.572