(14 nodes) RNA degradation, and mRNA processing network (Microbacterium sp. Root53)

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:
	KQZ04834.1	rRNA methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (273 aa)
	rpsA	30S ribosomal protein S1; In Escherichia coli this protein is involved in binding to the leader sequence of mRNAs and is itself bound to the 30S subunit; autoregulates expression via a C-terminal domain; in most gram negative organisms this protein is composed of 6 repeats of the S1 domain while in gram positive there are 4 repeats; the S1 nucleic acid-binding domain is found associated with other proteins; Derived by automated computational analysis using gene prediction method: Protein Homology. (483 aa)
	KQZ05257.1	RNA helicase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the DEAD box helicase family. (473 aa)
	KQZ05084.1	ATP-dependent RNA helicase HrpA; Derived by automated computational analysis using gene prediction method: Protein Homology. (1324 aa)
	deaD	Cold-shock protein; DEAD-box RNA helicase involved in various cellular processes at low temperature, including ribosome biogenesis, mRNA degradation and translation initiation. (599 aa)
	orn	Oligoribonuclease; 3'-to-5' exoribonuclease specific for small oligoribonucleotides; Belongs to the oligoribonuclease family. (208 aa)
	KQY99321.1	Ribonuclease G; Derived by automated computational analysis using gene prediction method: Protein Homology. (826 aa)
	KQY97564.1	DEAD/DEAH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology. (509 aa)
	KQY97019.1	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology. (475 aa)
	pnp	Polyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (757 aa)
	KQY96250.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (131 aa)
	KQZ10000.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (108 aa)
	KQZ10025.1	Derived by automated computational analysis using gene prediction method: Protein Homology. (400 aa)
	KQZ05804.1	CCA tRNA nucleotidyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the tRNA nucleotidyltransferase/poly(A) polymerase family. (475 aa)

Your Current Organism:

Microbacterium sp. Root53

NCBI taxonomy Id: 1736553
Other names: M. sp. Root53

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
KQY96250.1	KQY97019.1	ASD19_09945	ASD19_08810	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.816
KQY96250.1	KQY97564.1	ASD19_09945	ASD19_07595	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	DEAD/DEAH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.647
KQY96250.1	KQZ05257.1	ASD19_09945	ASD19_02745	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA helicase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the DEAD box helicase family.	0.647
KQY96250.1	deaD	ASD19_09945	ASD19_05150	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Cold-shock protein; DEAD-box RNA helicase involved in various cellular processes at low temperature, including ribosome biogenesis, mRNA degradation and translation initiation.	0.647
KQY97019.1	KQY96250.1	ASD19_08810	ASD19_09945	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.816
KQY97019.1	KQY97564.1	ASD19_08810	ASD19_07595	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	DEAD/DEAH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.423
KQY97019.1	KQY99321.1	ASD19_08810	ASD19_05475	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	Ribonuclease G; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.434
KQY97019.1	KQZ04834.1	ASD19_08810	ASD19_02050	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	rRNA methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.	0.489
KQY97019.1	KQZ05084.1	ASD19_08810	ASD19_03550	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	ATP-dependent RNA helicase HrpA; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.431
KQY97019.1	KQZ05257.1	ASD19_08810	ASD19_02745	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA helicase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the DEAD box helicase family.	0.423
KQY97019.1	KQZ05804.1	ASD19_08810	ASD19_13290	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	CCA tRNA nucleotidyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the tRNA nucleotidyltransferase/poly(A) polymerase family.	0.525
KQY97019.1	KQZ10025.1	ASD19_08810	ASD19_10760	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	Derived by automated computational analysis using gene prediction method: Protein Homology.	0.966
KQY97019.1	deaD	ASD19_08810	ASD19_05150	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	Cold-shock protein; DEAD-box RNA helicase involved in various cellular processes at low temperature, including ribosome biogenesis, mRNA degradation and translation initiation.	0.423
KQY97019.1	rpsA	ASD19_08810	ASD19_02420	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	30S ribosomal protein S1; In Escherichia coli this protein is involved in binding to the leader sequence of mRNAs and is itself bound to the 30S subunit; autoregulates expression via a C-terminal domain; in most gram negative organisms this protein is composed of 6 repeats of the S1 domain while in gram positive there are 4 repeats; the S1 nucleic acid-binding domain is found associated with other proteins; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.682
KQY97564.1	KQY96250.1	ASD19_07595	ASD19_09945	DEAD/DEAH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.647
KQY97564.1	KQY97019.1	ASD19_07595	ASD19_08810	DEAD/DEAH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Ribonuclease II; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.423
KQY97564.1	KQY99321.1	ASD19_07595	ASD19_05475	DEAD/DEAH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Ribonuclease G; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.721
KQY97564.1	KQZ04834.1	ASD19_07595	ASD19_02050	DEAD/DEAH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology.	rRNA methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.	0.509
KQY97564.1	KQZ05084.1	ASD19_07595	ASD19_03550	DEAD/DEAH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology.	ATP-dependent RNA helicase HrpA; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.861
KQY97564.1	KQZ10000.1	ASD19_07595	ASD19_10600	DEAD/DEAH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.745