(53 nodes) Winged helix-like DNA-binding domain superfamily network (Syntrophus aciditrophicus)

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:
	SYN_01646	Methyl-viologen-reducing hydrogenase, delta subunit. (214 aa)
	SYN_01855	Predicted transcriptional regulator, DeoR family. (346 aa)
	SYN_01476	Bacterial regulatory protein, LuxR family. (302 aa)
	SYN_01828	Hypothetical cytosolic protein. (69 aa)
	SYN_03243	Hypothetical cytosolic protein. (335 aa)
	SYN_03226	Transcriptional regulator, GntR family. (233 aa)
	SYN_03199	Hypothetical cytosolic protein. (94 aa)
	SYN_03173	Transposase. (108 aa)
	SYN_03008	Rrf2 family protein. (184 aa)
	ruvB	Holliday junction DNA helicase; The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. (340 aa)
	SYN_02919	6-o-methylguanine DNA methyltransferase. (440 aa)
	SYN_02915	Hypothetical cytosolic protein. (134 aa)
	SYN_02797	SMF family protein involved in DNA uptake. (394 aa)
	SYN_02743	Transcriptional regulator. (321 aa)
	SYN_02737	Hypothetical transcriptional regulatory protein. (139 aa)
	SYN_02646	Hypothetical cytosolic protein. (122 aa)
	SYN_02624	Transcriptional regulator, MarR family. (166 aa)
	SYN_02593	Transcriptional regulator GerE family. (586 aa)
	SYN_02584	Superfamily II DNA helicase. (619 aa)
	SYN_02541	Membrane spanning protein ribonuclease BN-like family. (454 aa)
	SYN_02524	Ferric uptake regulator family protein; Belongs to the Fur family. (171 aa)
	SYN_02424	Methyl-viologen-reducing hydrogenase, delta subunit. (213 aa)
	fur-2	Ferric uptake regulatory protein; Belongs to the Fur family. (150 aa)
	SYN_02339	Transcriptional regulator GerE family. (642 aa)
	SYN_02327	Transposase. (754 aa)
	SYN_02265	Transcriptional regulator AsnC family. (157 aa)
	SYN_02191	Selenocysteine-specific protein translation Elongation Factor. (636 aa)
	SYN_02121	Transcriptional regulator, LysR family; Belongs to the LysR transcriptional regulatory family. (319 aa)
	SYN_02037	Sigma factor; Belongs to the sigma-70 factor family. ECF subfamily. (217 aa)
	recX	Regulotory protein; Modulates RecA activity; Belongs to the RecX family. (172 aa)
	SYN_00007	Transcriptional regulator with a HTH domain. (525 aa)
	SYN_00112	Sensory domain linked to a LuxR family regulatory protein. (939 aa)
	birA	biotin-(acetyl-CoA carboxylase) ligase; Acts both as a biotin--[acetyl-CoA-carboxylase] ligase and a repressor; Belongs to the biotin--protein ligase family. (333 aa)
	SYN_00248	Cyclic nucleotide-binding domain protein. (229 aa)
	SYN_00341	Transcriptional regulator, arsR family. (124 aa)
	SYN_00342	Transcriptional regulator, marR family. (170 aa)
	SYN_00347	Transcriptional regulator, ArsR family. (112 aa)
	SYN_00359	DNA polymerase V subunit; Represses a number of genes involved in the response to DNA damage (SOS response). (195 aa)
	SYN_00574	cAMP-dependent transcriptional regulator. (226 aa)
	SYN_00639	RNA polymerase sigma-B factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (289 aa)
	SYN_00652	Transcriptional regulator, MarR family. (147 aa)
	SYN_00705	cAMP-dependent transcriptional regulator. (249 aa)
	SYN_00715	Sensory domain linked to a LuxR regulatory protein. (716 aa)
	SYN_00717	Transcriptional regulator. (125 aa)
	rpoD	RNA polymerase sigma factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth. (580 aa)
	SYN_00875	Response regulator containing a CheY-like receiver domain and an HD-GYP domain. (363 aa)
	fur	Transcriptional regulator, Fur family; Belongs to the Fur family. (151 aa)
	SYN_00981	Response regulator with a winged-helix DNA-binding domain. (245 aa)
	SYN_01028	Bacterial regulatory protein, LuxR family. (310 aa)
	SYN_01042	Molybdenum transport regulatory protein, lysR family. (121 aa)
	SYN_01043	Transposase. (145 aa)
	SYN_01274	Cell division protein. (733 aa)
	SYN_01430	gerE transcriptional regulator. (357 aa)

Your Current Organism:

Syntrophus aciditrophicus

NCBI taxonomy Id: 56780
Other names: S. aciditrophicus SB, Syntrophus aciditrophicus SB, Syntrophus aciditrophicus str. SB, Syntrophus aciditrophicus strain SB

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SYN_00112	SYN_00248	SYN_00112	SYN_00248	Sensory domain linked to a LuxR family regulatory protein.	Cyclic nucleotide-binding domain protein.	0.405
SYN_00112	SYN_00574	SYN_00112	SYN_00574	Sensory domain linked to a LuxR family regulatory protein.	cAMP-dependent transcriptional regulator.	0.405
SYN_00112	SYN_00705	SYN_00112	SYN_00705	Sensory domain linked to a LuxR family regulatory protein.	cAMP-dependent transcriptional regulator.	0.405
SYN_00112	SYN_01430	SYN_00112	SYN_01430	Sensory domain linked to a LuxR family regulatory protein.	gerE transcriptional regulator.	0.534
SYN_00112	SYN_02593	SYN_00112	SYN_02593	Sensory domain linked to a LuxR family regulatory protein.	Transcriptional regulator GerE family.	0.459
SYN_00248	SYN_00112	SYN_00248	SYN_00112	Cyclic nucleotide-binding domain protein.	Sensory domain linked to a LuxR family regulatory protein.	0.405
SYN_00341	SYN_00342	SYN_00341	SYN_00342	Transcriptional regulator, arsR family.	Transcriptional regulator, marR family.	0.543
SYN_00342	SYN_00341	SYN_00342	SYN_00341	Transcriptional regulator, marR family.	Transcriptional regulator, arsR family.	0.543
SYN_00359	SYN_02919	SYN_00359	SYN_02919	DNA polymerase V subunit; Represses a number of genes involved in the response to DNA damage (SOS response).	6-o-methylguanine DNA methyltransferase.	0.487
SYN_00359	SYN_03199	SYN_00359	SYN_03199	DNA polymerase V subunit; Represses a number of genes involved in the response to DNA damage (SOS response).	Hypothetical cytosolic protein.	0.485
SYN_00359	birA	SYN_00359	SYN_00211	DNA polymerase V subunit; Represses a number of genes involved in the response to DNA damage (SOS response).	biotin-(acetyl-CoA carboxylase) ligase; Acts both as a biotin--[acetyl-CoA-carboxylase] ligase and a repressor; Belongs to the biotin--protein ligase family.	0.497
SYN_00574	SYN_00112	SYN_00574	SYN_00112	cAMP-dependent transcriptional regulator.	Sensory domain linked to a LuxR family regulatory protein.	0.405
SYN_00574	SYN_00705	SYN_00574	SYN_00705	cAMP-dependent transcriptional regulator.	cAMP-dependent transcriptional regulator.	0.901
SYN_00574	SYN_03199	SYN_00574	SYN_03199	cAMP-dependent transcriptional regulator.	Hypothetical cytosolic protein.	0.734
SYN_00574	rpoD	SYN_00574	SYN_00757	cAMP-dependent transcriptional regulator.	RNA polymerase sigma factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth.	0.734
SYN_00639	SYN_02524	SYN_00639	SYN_02524	RNA polymerase sigma-B factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Ferric uptake regulator family protein; Belongs to the Fur family.	0.425
SYN_00639	SYN_02919	SYN_00639	SYN_02919	RNA polymerase sigma-B factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	6-o-methylguanine DNA methyltransferase.	0.436
SYN_00639	SYN_03199	SYN_00639	SYN_03199	RNA polymerase sigma-B factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Hypothetical cytosolic protein.	0.462
SYN_00639	fur	SYN_00639	SYN_00953	RNA polymerase sigma-B factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Transcriptional regulator, Fur family; Belongs to the Fur family.	0.402
SYN_00639	fur-2	SYN_00639	SYN_02397	RNA polymerase sigma-B factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Ferric uptake regulatory protein; Belongs to the Fur family.	0.425