(30 nodes) Ribosomal large subunit biogenesis, and GTP-binding protein, orthogonal bundle domain superfamily network (Phaeodactylum tricornutum)

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:
	PHATR_13281	60S ribosome subunit biogenesis protein NIP7 homolog; Required for proper 27S pre-rRNA processing and 60S ribosome subunit assembly; Belongs to the NIP7 family. (181 aa)
	PHATR_46846	Ribosome biogenesis protein NOP53; May play a role in ribosome biogenesis. Belongs to the NOP53 family. (420 aa)
	EIF6	Eukaryotic translation initiation factor 6; Binds to the 60S ribosomal subunit and prevents its association with the 40S ribosomal subunit to form the 80S initiation complex in the cytoplasm. May also be involved in ribosome biogenesis. (249 aa)
	B7FQ14_PHATC	Predicted protein. (801 aa)
	B7FQM6_PHATC	Predicted protein. (455 aa)
	B7FR49_PHATC	Predicted protein. (110 aa)
	B7FRR0_PHATC	Nucleolar GTP-binding protein 2; GTPase that associates with pre-60S ribosomal subunits in the nucleolus and is required for their nuclear export and maturation. Belongs to the TRAFAC class YlqF/YawG GTPase family. NOG2 subfamily. (562 aa)
	B7FS96_PHATC	Predicted protein. (671 aa)
	B7FSP6_PHATC	Ribosome biogenesis protein WDR12 homolog; Required for maturation of ribosomal RNAs and formation of the large ribosomal subunit; Belongs to the WD repeat WDR12/YTM1 family. (499 aa)
	B7FSQ2_PHATC	Predicted protein. (360 aa)
	B7FSV0_PHATC	Predicted protein; Belongs to the class I-like SAM-binding methyltransferase superfamily. RsmB/NOP family. (528 aa)
	B7FTV8_PHATC	Predicted protein. (266 aa)
	B7FTY4_PHATC	Predicted protein. (668 aa)
	B7FWN0_PHATC	Predicted protein. (354 aa)
	B7FXE3_PHATC	Predicted protein. (479 aa)
	B7FXQ7_PHATC	Predicted protein. (209 aa)
	B7FY03_PHATC	Ribosome assembly factor mrt4; Component of the ribosome assembly machinery. Nuclear paralog of the ribosomal protein P0, it binds pre-60S subunits at an early stage of assembly in the nucleolus, and is replaced by P0 in cytoplasmic pre-60S subunits and mature 80S ribosomes. (220 aa)
	B7FYT8_PHATC	Protein SDA1; Required for 60S pre-ribosomal subunits export to the cytoplasm; Belongs to the SDA1 family. (805 aa)
	B7FZA5_PHATC	Predicted protein. (260 aa)
	B7FZV9_PHATC	Predicted protein. (290 aa)
	B7G005_PHATC	Predicted protein. (488 aa)
	B7G354_PHATC	Predicted protein. (348 aa)
	B7G3S8_PHATC	Predicted protein. (516 aa)
	B7G3U3_PHATC	Predicted protein. (83 aa)
	B7G5M4_PHATC	Predicted protein. (406 aa)
	B7G6Z4_PHATC	Predicted protein. (134 aa)
	B7G8X7_PHATC	Predicted protein. (551 aa)
	B7GAN5_PHATC	Nucleolar GTP-binding protein 1; Involved in the biogenesis of the 60S ribosomal subunit. Belongs to the TRAFAC class OBG-HflX-like GTPase superfamily. OBG GTPase family. NOG subfamily. (677 aa)
	B7GD92_PHATC	Protein MAK16 homolog; Belongs to the MAK16 family. (313 aa)
	B7GDR2_PHATC	Predicted protein. (662 aa)

Your Current Organism:

Phaeodactylum tricornutum

NCBI taxonomy Id: 556484
Other names: P. tricornutum CCAP 1055/1, Phaeodactylum tricornutum CCAP 1055/1

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
B7FQ14_PHATC	B7FQM6_PHATC	B7FQ14	B7FQM6	Predicted protein.	Predicted protein.	0.953
B7FQ14_PHATC	B7FR49_PHATC	B7FQ14	B7FR49	Predicted protein.	Predicted protein.	0.995
B7FQ14_PHATC	B7FRR0_PHATC	B7FQ14	B7FRR0	Predicted protein.	Nucleolar GTP-binding protein 2; GTPase that associates with pre-60S ribosomal subunits in the nucleolus and is required for their nuclear export and maturation. Belongs to the TRAFAC class YlqF/YawG GTPase family. NOG2 subfamily.	0.938
B7FQ14_PHATC	B7FS96_PHATC	B7FQ14	B7FS96	Predicted protein.	Predicted protein.	0.999
B7FQ14_PHATC	B7FSP6_PHATC	B7FQ14	B7FSP6	Predicted protein.	Ribosome biogenesis protein WDR12 homolog; Required for maturation of ribosomal RNAs and formation of the large ribosomal subunit; Belongs to the WD repeat WDR12/YTM1 family.	0.993
B7FQ14_PHATC	B7FSQ2_PHATC	B7FQ14	B7FSQ2	Predicted protein.	Predicted protein.	0.998
B7FQ14_PHATC	B7FSV0_PHATC	B7FQ14	B7FSV0	Predicted protein.	Predicted protein; Belongs to the class I-like SAM-binding methyltransferase superfamily. RsmB/NOP family.	0.915
B7FQ14_PHATC	B7FTV8_PHATC	B7FQ14	B7FTV8	Predicted protein.	Predicted protein.	0.988
B7FQ14_PHATC	B7FTY4_PHATC	B7FQ14	B7FTY4	Predicted protein.	Predicted protein.	0.937
B7FQ14_PHATC	B7FWN0_PHATC	B7FQ14	B7FWN0	Predicted protein.	Predicted protein.	0.990
B7FQ14_PHATC	B7FXE3_PHATC	B7FQ14	B7FXE3	Predicted protein.	Predicted protein.	0.998
B7FQ14_PHATC	B7FXQ7_PHATC	B7FQ14	B7FXQ7	Predicted protein.	Predicted protein.	0.994
B7FQ14_PHATC	B7FY03_PHATC	B7FQ14	B7FY03	Predicted protein.	Ribosome assembly factor mrt4; Component of the ribosome assembly machinery. Nuclear paralog of the ribosomal protein P0, it binds pre-60S subunits at an early stage of assembly in the nucleolus, and is replaced by P0 in cytoplasmic pre-60S subunits and mature 80S ribosomes.	0.995
B7FQ14_PHATC	B7FYT8_PHATC	B7FQ14	B7FYT8	Predicted protein.	Protein SDA1; Required for 60S pre-ribosomal subunits export to the cytoplasm; Belongs to the SDA1 family.	0.903
B7FQ14_PHATC	B7FZA5_PHATC	B7FQ14	B7FZA5	Predicted protein.	Predicted protein.	0.994
B7FQ14_PHATC	B7FZV9_PHATC	B7FQ14	B7FZV9	Predicted protein.	Predicted protein.	0.985
B7FQ14_PHATC	B7G005_PHATC	B7FQ14	B7G005	Predicted protein.	Predicted protein.	0.956
B7FQ14_PHATC	B7G354_PHATC	B7FQ14	B7G354	Predicted protein.	Predicted protein.	0.995
B7FQ14_PHATC	B7G3S8_PHATC	B7FQ14	B7G3S8	Predicted protein.	Predicted protein.	0.998
B7FQ14_PHATC	B7G3U3_PHATC	B7FQ14	B7G3U3	Predicted protein.	Predicted protein.	0.627