(13 nodes) Mixed, incl. Formate metabolic process, and RidA family network (Hymenobacter sp. DG25B)

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:
	AIZ62567.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (62 aa)
	AIZ62568.1	Deaminase; Derived by automated computational analysis using gene prediction method: Protein Homology. (128 aa)
	AIZ62569.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (134 aa)
	AIZ62570.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+. (175 aa)
	AIZ62571.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+. (178 aa)
	AIZ63396.1	Amidohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology. (430 aa)
	AIZ63397.1	acyl-CoA-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (86 aa)
	AIZ63742.1	Histidine ammonia-lyase; Derived by automated computational analysis using gene prediction method: Protein Homology. (498 aa)
	AIZ65177.1	Amidohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology. (425 aa)
	hutI	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (420 aa)
	hutU	Urocanate hydratase; Catalyzes the conversion of urocanate to 4-imidazolone-5- propionate. (558 aa)
	AIZ64289.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the arginase family. (305 aa)
	AIZ64304.1	Peptidase M28; Derived by automated computational analysis using gene prediction method: Protein Homology. (454 aa)

Your Current Organism:

Hymenobacter sp. DG25B

NCBI taxonomy Id: 1385664
Other names: H. sp. DG25B

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TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

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structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

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node degree of proteins in your network (given the current score cut-off)

... network coordinates:

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a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

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MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

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a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

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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
AIZ62567.1	AIZ62568.1	PK28_00660	PK28_00665	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Deaminase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.773
AIZ62567.1	AIZ62569.1	PK28_00660	PK28_00670	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.479
AIZ62567.1	AIZ63396.1	PK28_00660	PK28_06265	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Amidohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.636
AIZ62567.1	AIZ63742.1	PK28_00660	PK28_08620	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Histidine ammonia-lyase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.773
AIZ62567.1	AIZ65177.1	PK28_00660	PK28_10980	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Amidohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.636
AIZ62567.1	hutI	PK28_00660	PK28_12295	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.636
AIZ62568.1	AIZ62567.1	PK28_00665	PK28_00660	Deaminase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.773
AIZ62568.1	AIZ62569.1	PK28_00665	PK28_00670	Deaminase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.479
AIZ62569.1	AIZ62567.1	PK28_00670	PK28_00660	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.479
AIZ62569.1	AIZ62568.1	PK28_00670	PK28_00665	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Deaminase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.479
AIZ62570.1	AIZ62571.1	PK28_00680	PK28_00685	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.732
AIZ62571.1	AIZ62570.1	PK28_00685	PK28_00680	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.732
AIZ63396.1	AIZ62567.1	PK28_06265	PK28_00660	Amidohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.636
AIZ63396.1	AIZ63397.1	PK28_06265	PK28_06270	Amidohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology.	acyl-CoA-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.537
AIZ63396.1	AIZ63742.1	PK28_06265	PK28_08620	Amidohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Histidine ammonia-lyase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.715
AIZ63396.1	AIZ64304.1	PK28_06265	PK28_12540	Amidohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptidase M28; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.539
AIZ63396.1	hutU	PK28_06265	PK28_12430	Amidohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Urocanate hydratase; Catalyzes the conversion of urocanate to 4-imidazolone-5- propionate.	0.636
AIZ63397.1	AIZ63396.1	PK28_06270	PK28_06265	acyl-CoA-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Amidohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.537
AIZ63742.1	AIZ62567.1	PK28_08620	PK28_00660	Histidine ammonia-lyase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.773
AIZ63742.1	AIZ63396.1	PK28_08620	PK28_06265	Histidine ammonia-lyase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Amidohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.715