Domain combination pairs in butyrate-producing bacterium SSC/2

All pairs of domain combinations at the superfamily level are listed here.
The identification of domain pairs does not account for the possibility of non-contiguous domains. Inserted, or interlaced, domains are seen as having a simple pair ordering.

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Domain combination pairs

525 domain combination pairs.
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Superfamily (N)	Superfamily (C)	Number of occurrances	Number unique
P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	16	10
Actin-like ATPase domain	Actin-like ATPase domain	16	6
ABC transporter transmembrane region	P-loop containing nucleoside triphosphate hydrolases	15	2
NAD(P)-binding Rossmann-fold domains	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	15	5
Homodimeric domain of signal transducing histidine kinase	ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	15	7
Sigma2 domain of RNA polymerase sigma factors	Sigma3 and sigma4 domains of RNA polymerase sigma factors	11	2
"Winged helix" DNA-binding domain	Periplasmic binding protein-like II	11	1
CheY-like	C-terminal effector domain of the bipartite response regulators	11	1
NAD(P)-binding Rossmann-fold domains	6-phosphogluconate dehydrogenase C-terminal domain-like	11	2
GroES-like	NAD(P)-binding Rossmann-fold domains	9	2
lambda repressor-like DNA-binding domains	Periplasmic binding protein-like I	9	1
PTS system IIB component-like	Phoshotransferase/anion transport protein	8	5
Invasin/intimin cell-adhesion fragments	Invasin/intimin cell-adhesion fragments	7	6
PTS-regulatory domain, PRD	PTS system IIB component-like	7	4
PreATP-grasp domain	Glutathione synthetase ATP-binding domain-like	7	4
PTS-regulatory domain, PRD	Phoshotransferase/anion transport protein	7	4
Thiamin diphosphate-binding fold (THDP-binding)	TK C-terminal domain-like	6	4
MurD-like peptide ligases, catalytic domain	MurD-like peptide ligases, peptide-binding domain	6	3
Homeodomain-like	SIS domain	6	1
PTS-regulatory domain, PRD	PTS-regulatory domain, PRD	6	4
Nucleotidylyl transferase	Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	6	6
Composite domain of metallo-dependent hydrolases	Metallo-dependent hydrolases	6	3
Adenine nucleotide alpha hydrolases-like	DHS-like NAD/FAD-binding domain	6	2
P-loop containing nucleoside triphosphate hydrolases	Translation proteins	6	6
Calcium ATPase, transduction domain A	HAD-like	5	5
Thiamin diphosphate-binding fold (THDP-binding)	Thiamin diphosphate-binding fold (THDP-binding)	5	3
Glucose permease domain IIB	Duplicated hybrid motif	5	2
Acyl-CoA dehydrogenase NM domain-like	Acyl-CoA dehydrogenase C-terminal domain-like	5	1
Homeodomain-like	Homeodomain-like	5	3
Alpha-L RNA-binding motif	Pseudouridine synthase	4	1
Homodimeric domain of signal transducing histidine kinase	CheY-like	4	3
Formate/glycerate dehydrogenase catalytic domain-like	NAD(P)-binding Rossmann-fold domains	4	2
(Trans)glycosidases	Glycosyl hydrolase domain	4	3
Nucleic acid-binding proteins	Class II aaRS and biotin synthetases	4	3
Nucleic acid-binding proteins	Nucleic acid-binding proteins	4	4
PurM N-terminal domain-like	PurM C-terminal domain-like	4	2
Arabinanase/levansucrase/invertase	Concanavalin A-like lectins/glucanases	4	2
P-loop containing nucleoside triphosphate hydrolases	EF-G C-terminal domain-like	4	4
Calcium ATPase, transduction domain A	Calcium ATPase, transmembrane domain M	4	4
ACT-like	ACT-like	4	2
ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	CheY-like	4	3
Class II aaRS and biotin synthetases	Class II aaRS ABD-related	4	3
Aminoacid dehydrogenase-like, N-terminal domain	NAD(P)-binding Rossmann-fold domains	4	1
Phospholipase D/nuclease	Phospholipase D/nuclease	4	3
Zn-dependent exopeptidases	Bacterial exopeptidase dimerisation domain	4	1
"Winged helix" DNA-binding domain	NagB/RpiA/CoA transferase-like	4	1
PreATP-grasp domain	Rudiment single hybrid motif	4	2
Glutathione synthetase ATP-binding domain-like	Rudiment single hybrid motif	4	2
Calcium ATPase, transmembrane domain M	HAD-like	4	4
HMA, heavy metal-associated domain	Calcium ATPase, transduction domain A	3	3
Regulatory protein AraC	Homeodomain-like	3	1
FAD/NAD(P)-binding domain	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	3	2
HMA, heavy metal-associated domain	Calcium ATPase, transmembrane domain M	3	3
Thiamin diphosphate-binding fold (THDP-binding)	DHS-like NAD/FAD-binding domain	3	1
DNA methylase specificity domain	DNA methylase specificity domain	3	1
NAD(P)-binding Rossmann-fold domains	ACT-like	3	3
4Fe-4S ferredoxins	Fe-only hydrogenase	3	2
Sigma3 and sigma4 domains of RNA polymerase sigma factors	Sigma3 and sigma4 domains of RNA polymerase sigma factors	3	1
Multidrug efflux transporter AcrB transmembrane domain	Multidrug efflux transporter AcrB transmembrane domain	3	3
Penicillin binding protein dimerisation domain	beta-lactamase/transpeptidase-like	3	2
N-terminal domain of alpha and beta subunits of F1 ATP synthase	P-loop containing nucleoside triphosphate hydrolases	3	1
P-loop containing nucleoside triphosphate hydrolases	EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain	3	3
Nucleic acid-binding proteins	P-loop containing nucleoside triphosphate hydrolases	3	2
P-loop containing nucleoside triphosphate hydrolases	Ribosomal protein S5 domain 2-like	3	3
N-terminal domain of alpha and beta subunits of F1 ATP synthase	C-terminal domain of alpha and beta subunits of F1 ATP synthase	3	1
Translation proteins	EF-G C-terminal domain-like	3	3
ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	Ribosomal protein S5 domain 2-like	3	2
NAD(P)-binding Rossmann-fold domains	TrkA C-terminal domain-like	3	2
alpha-helical ferredoxin	Nucleotide-binding domain	3	2
Multidrug resistance efflux transporter EmrE	Multidrug resistance efflux transporter EmrE	3	2
HMA, heavy metal-associated domain	HMA, heavy metal-associated domain	3	3
Lysozyme-like	Cysteine proteinases	3	1
NAD(P)-binding Rossmann-fold domains	LDH C-terminal domain-like	3	2
HMA, heavy metal-associated domain	HAD-like	3	3
4Fe-4S ferredoxins	Radical SAM enzymes	3	1
ValRS/IleRS/LeuRS editing domain	Nucleotidylyl transferase	3	3
Triger factor/SurA peptide-binding domain-like	FKBP-like	3	3
P-loop containing nucleoside triphosphate hydrolases	C-terminal domain of alpha and beta subunits of F1 ATP synthase	3	1
EF-G C-terminal domain-like	EF-G C-terminal domain-like	3	3
L30e-like	alpha/beta knot	3	1
Nucleotide-binding domain	Nucleotide-binding domain	3	2
HAMP domain-like	ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	3	2
FAD-binding/transporter-associated domain-like	FAD-linked oxidases, C-terminal domain	3	1
ValRS/IleRS/LeuRS editing domain	Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	3	3
"Winged helix" DNA-binding domain	PLP-dependent transferases	2	1
FMN-linked oxidoreductases	FAD/NAD(P)-binding domain	2	2
L domain-like	Fibronectin type III	2	2
HSP40/DnaJ peptide-binding domain	HSP40/DnaJ peptide-binding domain	2	2
P-loop containing nucleoside triphosphate hydrolases	"Winged helix" DNA-binding domain	2	2
Carbamoyl phosphate synthetase, large subunit connection domain	Methylglyoxal synthase-like	2	1
Class II aaRS and biotin synthetases	GAD domain-like	2	1
Nucleotide-diphospho-sugar transferases	Trimeric LpxA-like enzymes	2	1
PYP-like sensor domain (PAS domain)	Homodimeric domain of signal transducing histidine kinase	2	2
Phosphoglucomutase, first 3 domains	Phosphoglucomutase, C-terminal domain	2	2
P-loop containing nucleoside triphosphate hydrolases	post-AAA+ oligomerization domain-like	2	2
NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	2	2
Chaperone J-domain	HSP40/DnaJ peptide-binding domain	2	2
Ribosomal protein S5 domain 2-like	EF-G C-terminal domain-like	2	2
PreATP-grasp domain	PreATP-grasp domain	2	1
MurCD N-terminal domain	MurD-like peptide ligases, peptide-binding domain	2	1
Nucleic acid-binding proteins	GAD domain-like	2	1
NEAT domain-like	Fibronectin type III	2	2
Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain	Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain	2	2
PYP-like sensor domain (PAS domain)	ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	2	2
PPK N-terminal domain-like	Phospholipase D/nuclease	2	1
CBS-domain pair	FAD-binding/transporter-associated domain-like	2	1
4Fe-4S ferredoxins	DHS-like NAD/FAD-binding domain	2	1
ParB/Sulfiredoxin	KorB DNA-binding domain-like	2	2
Glutathione synthetase ATP-binding domain-like	Methylglyoxal synthase-like	2	1
"Winged helix" DNA-binding domain	GAF domain-like	2	1
E set domains	(Trans)glycosidases	2	2
CheY-like	CheY-like	2	2
Ribosomal protein S5 domain 2-like	GHMP Kinase, C-terminal domain	2	2
PreATP-grasp domain	Carbamoyl phosphate synthetase, large subunit connection domain	2	1
"Winged helix" DNA-binding domain	GntR ligand-binding domain-like	2	1
PHP14-like	Phospholipase D/nuclease	2	1
4Fe-4S ferredoxins	Adenine nucleotide alpha hydrolases-like	2	1
S-adenosyl-L-methionine-dependent methyltransferases	DNA methylase specificity domain	2	2
HAMP domain-like	Homodimeric domain of signal transducing histidine kinase	2	1
P-loop containing nucleoside triphosphate hydrolases	MOP-like	2	2
Lysozyme-like	beta-lactamase/transpeptidase-like	2	2
PK beta-barrel domain-like	Phosphoenolpyruvate/pyruvate domain	2	2
Translation proteins	EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain	2	2
"Winged helix" DNA-binding domain	PTS system IIB component-like	2	2
PPK N-terminal domain-like	PHP14-like	2	1
MurE/MurF N-terminal domain	MurD-like peptide ligases, peptide-binding domain	2	1
Glutathione synthetase ATP-binding domain-like	Glutathione synthetase ATP-binding domain-like	2	1
S-adenosyl-L-methionine-dependent methyltransferases	Putative methyltransferase TM0872, insert domain	2	1
tRNA-binding arm	Class II aaRS and biotin synthetases	2	1
Glutathione synthetase ATP-binding domain-like	Carbamoyl phosphate synthetase, large subunit connection domain	2	1
Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain	2	1
FAD/NAD(P)-binding domain	HI0933 insert domain-like	2	1
Serine metabolism enzymes domain	ACT-like	2	1
"Winged helix" DNA-binding domain	PTS-regulatory domain, PRD	2	2
PreATP-grasp domain	Methylglyoxal synthase-like	2	1
PLP-binding barrel	Alanine racemase C-terminal domain-like	2	1
PYP-like sensor domain (PAS domain)	CheY-like	2	2
Thiolase-like	Thiolase-like	2	1
PUA domain-like	P-loop containing nucleoside triphosphate hydrolases	2	2
PYP-like sensor domain (PAS domain)	Nucleotide cyclase	2	2
NagB/RpiA/CoA transferase-like	NagB/RpiA/CoA transferase-like	2	1
Nucleotide cyclase	EAL domain-like	2	2
beta-lactamase/transpeptidase-like	Penicillin-binding protein associated domain	2	1
L domain-like	Invasin/intimin cell-adhesion fragments	2	2
MurE/MurF N-terminal domain	MurD-like peptide ligases, catalytic domain	2	1
Ferritin-like	Rubredoxin-like	2	2
Phosphoglucomutase, first 3 domains	Phosphoglucomutase, first 3 domains	2	2
Aldolase	post-HMGL domain-like	2	2
FAD/NAD(P)-binding domain	Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain	2	1
PR-1-like	Invasin/intimin cell-adhesion fragments	2	2
MurCD N-terminal domain	MurD-like peptide ligases, catalytic domain	2	1
ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	Type II DNA topoisomerase	2	1
Type II DNA topoisomerase	GyrA/ParC C-terminal domain-like	2	1
Copper amine oxidase, domain N	Zn-dependent exopeptidases	2	1
CorA soluble domain-like	Magnesium transport protein CorA, transmembrane region	2	1
DNA repair protein MutS, domain III	P-loop containing nucleoside triphosphate hydrolases	2	2
Nicotinate/Quinolinate PRTase N-terminal domain-like	Nicotinate/Quinolinate PRTase C-terminal domain-like	2	1
Double Clp-N motif	P-loop containing nucleoside triphosphate hydrolases	2	2
Epsilon subunit of F1F0-ATP synthase N-terminal domain	Epsilon subunit of F1F0-ATP synthase C-terminal domain	2	1
Ribosomal protein S5 domain 2-like	Type II DNA topoisomerase	2	1
E set domains	Glycosyl hydrolase domain	2	2
Periplasmic binding protein-like II	5'-nucleotidase (syn. UDP-sugar hydrolase), C-terminal domain	2	1
Phosphohistidine domain	Phosphoenolpyruvate/pyruvate domain	2	2
Trypsin-like serine proteases	PDZ domain-like	2	2
Nucleotide-binding domain	FAD-linked reductases, C-terminal domain	2	1
Ribosomal protein S5 domain 2-like	Ribosomal protein S5 domain 2-like	2	2
Aminopeptidase/glucanase lid domain	Zn-dependent exopeptidases	2	2
Actin-like ATPase domain	Heat shock protein 70kD (HSP70), peptide-binding domain	2	2
Nucleic acid-binding proteins	Translation proteins SH3-like domain	2	2
Riboflavin synthase domain-like	Ferredoxin reductase-like, C-terminal NADP-linked domain	1	1
Chorismate mutase II	ACT-like	1	1
6-phosphogluconate dehydrogenase C-terminal domain-like	ACT-like	1	1
MFS general substrate transporter	P-loop containing nucleoside triphosphate hydrolases	1	1
Nucleic acid-binding proteins	ArfGap/RecO-like zinc finger	1	1
PRTase-like	PRTase-like	1	1
Rudiment single hybrid motif	post-HMGL domain-like	1	1
Carbamate kinase-like	ACT-like	1	1
GroEL equatorial domain-like	GroEL-intermediate domain like	1	1
Acyl-CoA N-acyltransferases (Nat)	Acyl-CoA N-acyltransferases (Nat)	1	1
CBS-domain pair	DHH phosphoesterases	1	1
Nucleotidylyl transferase	Nucleic acid-binding proteins	1	1
Putative DNA-binding domain	Class II aaRS and biotin synthetases	1	1
Nucleotidyltransferase	Poly A polymerase C-terminal region-like	1	1
AhpD-like	RmlC-like cupins	1	1
Cobalamin (vitamin B12)-binding domain	Radical SAM enzymes	1	1
Methylated DNA-protein cysteine methyltransferase domain	Methylated DNA-protein cysteine methyltransferase, C-terminal domain	1	1
SNF-like	SNF-like	1	1
PreATP-grasp domain	post-HMGL domain-like	1	1
PLP-dependent transferases	Ornithine decarboxylase C-terminal domain	1	1
Invasin/intimin cell-adhesion fragments	Cysteine proteinases	1	1
Glutamine synthetase/guanido kinase	GatB/YqeY motif	1	1
Translation proteins	Translation proteins	1	1
GroEL equatorial domain-like	GroEL apical domain-like	1	1
NAD(P)-binding Rossmann-fold domains	1-deoxy-D-xylulose-5-phosphate reductoisomerase, C-terminal domain	1	1
Sigma2 domain of RNA polymerase sigma factors	C-terminal effector domain of the bipartite response regulators	1	1
PUA domain-like	Ribosomal protein S5 domain 2-like	1	1
PheT/TilS domain	Putative DNA-binding domain	1	1
Dihydropteroate synthetase-like	Nitrite and sulphite reductase 4Fe-4S domain-like	1	1
DNA/RNA polymerases	Trypsin-like serine proteases	1	1
FMN-linked oxidoreductases	Alpha subunit of glutamate synthase, C-terminal domain	1	1
Calcium ATPase, transduction domain A	Metal cation-transporting ATPase, ATP-binding domain N	1	1
Transcription factor NusA, N-terminal domain	Nucleic acid-binding proteins	1	1
PheT/TilS domain	Class II aaRS and biotin synthetases	1	1
PYP-like sensor domain (PAS domain)	EAL domain-like	1	1
Ribonuclease PH domain 2-like	Nucleic acid-binding proteins	1	1
SacY-like RNA-binding domain	PTS-regulatory domain, PRD	1	1
post-AAA+ oligomerization domain-like	OmpH-like	1	1
Eukaryotic type KH-domain (KH-domain type I)	P-loop containing nucleoside triphosphate hydrolases	1	1
DNA repair protein MutS, domain II	P-loop containing nucleoside triphosphate hydrolases	1	1
P-loop containing nucleoside triphosphate hydrolases	TRAP-like	1	1
post-HMGL domain-like	Single hybrid motif	1	1
P-loop containing nucleoside triphosphate hydrolases	Obg GTP-binding protein C-terminal domain	1	1
THUMP domain-like	Adenine nucleotide alpha hydrolases-like	1	1
GIY-YIG endonuclease	RuvA domain 2-like	1	1
Nucleotidylyl transferase	Riboflavin kinase-like	1	1
IlvD/EDD N-terminal domain-like	LeuD/IlvD-like	1	1
Ribonuclease H-like	RuvA domain 2-like	1	1
DNA-binding domain	DNA breaking-rejoining enzymes	1	1
Prokaryotic type KH domain (KH-domain type II)	Prokaryotic type KH domain (KH-domain type II)	1	1
ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	DNA mismatch repair protein MutL	1	1
Pre-protein crosslinking domain of SecA	Helical scaffold and wing domains of SecA	1	1
TGS-like	ThrRS/AlaRS common domain	1	1
Translation proteins	Ribosomal protein S5 domain 2-like	1	1
Adenine nucleotide alpha hydrolases-like	Homodimeric domain of signal transducing histidine kinase	1	1
Nucleotidyltransferase	TGS-like	1	1
LuxS/MPP-like metallohydrolase	LuxS/MPP-like metallohydrolase	1	1
NAD(P)-binding Rossmann-fold domains	Glutamyl tRNA-reductase dimerization domain	1	1
Ribonuclease H-like	Nucleic acid-binding proteins	1	1
Aspartate/glutamate racemase	Aspartate/glutamate racemase	1	1
PH0987 N-terminal domain-like	Cyclophilin-like	1	1
"Winged helix" DNA-binding domain	Phoshotransferase/anion transport protein	1	1
Protein kinase-like (PK-like)	Penicillin-binding protein 2x (pbp-2x), c-terminal domain	1	1
P-loop containing nucleoside triphosphate hydrolases	Tropomyosin	1	1
Nitrite/Sulfite reductase N-terminal domain-like	Nitrite/Sulfite reductase N-terminal domain-like	1	1
Putative DNA-binding domain	Antibiotic binding domain of TipA-like multidrug resistance regulators	1	1
Actin-like ATPase domain	Heat shock protein 70kD (HSP70), C-terminal subdomain	1	1
Invasin/intimin cell-adhesion fragments	Fibronectin type III	1	1
NusB-like	S-adenosyl-L-methionine-dependent methyltransferases	1	1
DNA repair protein MutS, domain III	SMR domain-like	1	1
Tex N-terminal region-like	Nucleic acid-binding proteins	1	1
Thioesterase/thiol ester dehydrase-isomerase	Thioesterase/thiol ester dehydrase-isomerase	1	1
DNA repair protein MutS, domain I	DNA repair protein MutS, domain II	1	1
P-loop containing nucleoside triphosphate hydrolases	RecA protein, C-terminal domain	1	1
Alpha-L RNA-binding motif	S-adenosyl-L-methionine-dependent methyltransferases	1	1
2Fe-2S ferredoxin-like	4Fe-4S ferredoxins	1	1
Class I glutamine amidotransferase-like	Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain	1	1
Tp47 lipoprotein, N-terminal domain	Tp47 lipoprotein, middle and C-terminal domains	1	1
Formyltransferase	FMT C-terminal domain-like	1	1
Aconitase iron-sulfur domain	LeuD/IlvD-like	1	1
Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains	Multidrug efflux transporter AcrB transmembrane domain	1	1
Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains	Multidrug efflux transporter AcrB transmembrane domain	1	1
HD-domain/PDEase-like	TGS-like	1	1
PYP-like sensor domain (PAS domain)	DHH phosphoesterases	1	1
DNA repair protein MutS, domain I	DNA repair protein MutS, domain III	1	1
Ribosomal protein S5 domain 2-like	Nucleic acid-binding proteins	1	1
Nqo1 FMN-binding domain-like	alpha-helical ferredoxin	1	1
Domain of the SRP/SRP receptor G-proteins	P-loop containing nucleoside triphosphate hydrolases	1	1
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	Alpha subunit of glutamate synthase, C-terminal domain	1	1
HD-domain/PDEase-like	Nucleotidyltransferase	1	1
Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	1-deoxy-D-xylulose-5-phosphate reductoisomerase, C-terminal domain	1	1
RBP11-like subunits of RNA polymerase	C-terminal domain of RNA polymerase alpha subunit	1	1
ValRS/IleRS/LeuRS editing domain	tRNA-binding arm	1	1
"Winged helix" DNA-binding domain	"Winged helix" DNA-binding domain	1	1
DeoB insert domain-like	Alkaline phosphatase-like	1	1
Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain	HemD-like	1	1
Formate/glycerate dehydrogenase catalytic domain-like	ACT-like	1	1
HprK N-terminal domain-like	PEP carboxykinase-like	1	1
Thiamin pyrophosphokinase, catalytic domain	Thiamin pyrophosphokinase, substrate-binding domain	1	1
Nucleotidylyl transferase	tRNA-binding arm	1	1
Nucleotidylyl transferase	Ribosomal protein L25-like	1	1
P-loop containing nucleoside triphosphate hydrolases	DNA ligase/mRNA capping enzyme, catalytic domain	1	1
MgtE N-terminal domain-like	MgtE membrane domain-like	1	1
Metal cation-transporting ATPase, ATP-binding domain N	HAD-like	1	1
Rhodanese/Cell cycle control phosphatase	Activating enzymes of the ubiquitin-like proteins	1	1
Flavoproteins	4Fe-4S ferredoxins	1	1
L9 N-domain-like	Ribonuclease H-like	1	1
Invasin/intimin cell-adhesion fragments	LmbE-like	1	1
PreATP-grasp domain	Single hybrid motif	1	1
Ribonuclease PH domain 2-like	Eukaryotic type KH-domain (KH-domain type I)	1	1
SirA-like	DsrEFH-like	1	1
Rudiment single hybrid motif	Single hybrid motif	1	1
PheT/TilS domain	Anticodon-binding domain of PheRS	1	1
MFS general substrate transporter	"Winged helix" DNA-binding domain	1	1
TK C-terminal domain-like	4Fe-4S ferredoxins	1	1
Subtilisin-like	Invasin/intimin cell-adhesion fragments	1	1
PurM C-terminal domain-like	PurM C-terminal domain-like	1	1
Tex N-terminal region-like	RuvA domain 2-like	1	1
N-utilization substance G protein NusG, N-terminal domain	Translation proteins SH3-like domain	1	1
Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	Nucleic acid-binding proteins	1	1
Ribosomal protein L6	Ribosomal protein L6	1	1
Chorismate mutase II	Periplasmic binding protein-like II	1	1
P-loop containing nucleoside triphosphate hydrolases	Initiation factor IF2/eIF5b, domain 3	1	1
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	FMN-linked oxidoreductases	1	1
HprK N-terminal domain-like	DHH phosphoesterases	1	1
Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	ACT-like	1	1
Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	tRNA-binding arm	1	1
Trigger factor ribosome-binding domain	Triger factor/SurA peptide-binding domain-like	1	1
CO dehydrogenase molybdoprotein N-domain-like	Molybdenum cofactor-binding domain	1	1
4Fe-4S ferredoxins	4Fe-4S ferredoxins	1	1
Nucleic acid-binding proteins	Anticodon-binding domain of PheRS	1	1
2Fe-2S ferredoxin-like	CO dehydrogenase ISP C-domain like	1	1
ThrRS/AlaRS common domain	Class II aaRS and biotin synthetases	1	1
Insert subdomain of RNA polymerase alpha subunit	RBP11-like subunits of RNA polymerase	1	1
Tex N-terminal region-like	Ribonuclease H-like	1	1
2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain	Alkaline phosphatase-like	1	1
Ribosomal protein S5 domain 2-like	Eukaryotic type KH-domain (KH-domain type I)	1	1
Obg GTP-binding protein N-terminal domain	Obg GTP-binding protein C-terminal domain	1	1
Glutathione synthetase ATP-binding domain-like	Phosphoenolpyruvate/pyruvate domain	1	1
DNA repair protein MutS, domain I	P-loop containing nucleoside triphosphate hydrolases	1	1
PEP carboxykinase N-terminal domain	PEP carboxykinase-like	1	1
Translation initiation factor IF3, N-terminal domain	Translation initiation factor IF3, C-terminal domain	1	1
Nucleic acid-binding proteins	PheT/TilS domain	1	1
Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain	Pyrimidine nucleoside phosphorylase C-terminal domain	1	1
"Winged helix" DNA-binding domain	Dimeric alpha+beta barrel	1	1
Aldolase	Single hybrid motif	1	1
Glutathione synthetase ATP-binding domain-like	HAD-like	1	1
Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain	Phosphohistidine domain	1	1
"Winged helix" DNA-binding domain	Periplasmic binding protein-like I	1	1
Nucleotide-binding domain	FAD/NAD(P)-binding domain	1	1
(Trans)glycosidases	Fibronectin type III	1	1
Homo-oligomeric flavin-containing Cys decarboxylases, HFCD	CoaB-like	1	1
NTF2-like	Penicillin binding protein dimerisation domain	1	1
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	Adenine nucleotide alpha hydrolases-like	1	1
Dihydropteroate synthetase-like	Methionine synthase domain	1	1
NTF2-like	beta-lactamase/transpeptidase-like	1	1
"Winged helix" DNA-binding domain	Class II aaRS and biotin synthetases	1	1
Translation proteins	PRC-barrel domain	1	1
DNA repair protein MutS, domain II	DNA repair protein MutS, domain III	1	1
Sortase	Sortase	1	1
Periplasmic binding protein-like II	HemD-like	1	1
Homocysteine S-methyltransferase	Dihydropteroate synthetase-like	1	1
GIY-YIG endonuclease	C-terminal UvrC-binding domain of UvrB	1	1
P-loop containing nucleoside triphosphate hydrolases	Restriction endonuclease-like	1	1
Glutamyl tRNA-reductase catalytic, N-terminal domain	NAD(P)-binding Rossmann-fold domains	1	1
Carbamoyl phosphate synthetase, small subunit N-terminal domain	Class I glutamine amidotransferase-like	1	1
FMN-linked oxidoreductases	Nucleotide-binding domain	1	1
Tetrahydrobiopterin biosynthesis enzymes-like	6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK	1	1
Smc hinge domain	Tropomyosin	1	1
PurM N-terminal domain-like	Class I glutamine amidotransferase-like	1	1
C-terminal UvrC-binding domain of UvrB	RuvA domain 2-like	1	1
L9 N-domain-like	Ribosomal protein L9 C-domain	1	1
Nucleic acid-binding proteins	Prokaryotic type KH domain (KH-domain type II)	1	1
Coiled-coil domain of nucleotide exchange factor GrpE	Head domain of nucleotide exchange factor GrpE	1	1
P-loop containing nucleoside triphosphate hydrolases	TPR-like	1	1
Thiamin diphosphate-binding fold (THDP-binding)	4Fe-4S ferredoxins	1	1
Periplasmic binding protein-like II	Periplasmic binding protein-like II	1	1
TTHA1013/TTHA0281-like	Ribbon-helix-helix	1	1
P-loop containing nucleoside triphosphate hydrolases	C-terminal UvrC-binding domain of UvrB	1	1
Mechanosensitive channel protein MscS (YggB), transmembrane region	Mechanosensitive channel protein MscS (YggB), C-terminal domain	1	1
Sm-like ribonucleoproteins	Mechanosensitive channel protein MscS (YggB), C-terminal domain	1	1
UBA-like	Elongation factor Ts (EF-Ts), dimerisation domain	1	1
Transcription factor NusA, N-terminal domain	Prokaryotic type KH domain (KH-domain type II)	1	1
CBS-domain pair	MgtE membrane domain-like	1	1
Metal cation-transporting ATPase, ATP-binding domain N	Calcium ATPase, transmembrane domain M	1	1
Ribosomal protein S5 domain 2-like	DNA mismatch repair protein MutL	1	1
Periplasmic binding protein-like II	ACT-like	1	1
Class I glutamine amidotransferase-like	Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain	1	1
TK C-terminal domain-like	Pyruvate-ferredoxin oxidoreductase, PFOR, domain III	1	1
Putative DNA-binding domain	S-adenosyl-L-methionine-dependent methyltransferases	1	1
Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain	Pyrimidine nucleoside phosphorylase C-terminal domain	1	1
P-loop containing nucleoside triphosphate hydrolases	Signal peptide-binding domain	1	1
Nitrite and sulphite reductase 4Fe-4S domain-like	Nitrite and sulphite reductase 4Fe-4S domain-like	1	1
Phosphoenolpyruvate/pyruvate domain	PK C-terminal domain-like	1	1
TGS-like	Class II aaRS and biotin synthetases	1	1
Chaperone J-domain	DnaJ/Hsp40 cysteine-rich domain	1	1
Nitrite/Sulfite reductase N-terminal domain-like	Nitrite and sulphite reductase 4Fe-4S domain-like	1	1
Phospholipase D/nuclease	P-loop containing nucleoside triphosphate hydrolases	1	1
"Winged helix" DNA-binding domain	Chorismate lyase-like	1	1
FabD/lysophospholipase-like	Probable ACP-binding domain of malonyl-CoA ACP transacylase	1	1
Creatinase/prolidase N-terminal domain	Creatinase/aminopeptidase	1	1
Diaminopimelate epimerase-like	Diaminopimelate epimerase-like	1	1
Glutathione synthetase ATP-binding domain-like	Aldolase	1	1
PTS system fructose IIA component-like	PTS IIb component	1	1
Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain	Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	1	1
TGS-like	ACT-like	1	1
Creatinase/prolidase N-terminal domain	Creatinase/prolidase N-terminal domain	1	1
Methionine synthase domain	Cobalamin (vitamin B12)-binding domain	1	1
Glutathione synthetase ATP-binding domain-like	Single hybrid motif	1	1
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	PRTase-like	1	1
PurM C-terminal domain-like	Class I glutamine amidotransferase-like	1	1
Tryptophan synthase beta subunit-like PLP-dependent enzymes	ACT-like	1	1
Zn-dependent exopeptidases	Sporulation related repeat	1	1
Nucleotide-diphospho-sugar transferases	UDP-Glycosyltransferase/glycogen phosphorylase	1	1
Chaperone J-domain	TPR-like	1	1
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	SIS domain	1	1
PK beta-barrel domain-like	PK C-terminal domain-like	1	1
Pyruvate-ferredoxin oxidoreductase, PFOR, domain III	4Fe-4S ferredoxins	1	1
Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains	Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains	1	1
HprK N-terminal domain-like	CBS-domain pair	1	1
Class II aaRS and biotin synthetases	Anticodon-binding domain of PheRS	1	1
"Winged helix" DNA-binding domain	C-terminal domain of arginine repressor	1	1
P-loop containing nucleoside triphosphate hydrolases	TrpR-like	1	1
Phosphotyrosine protein phosphatases I	Ribose/Galactose isomerase RpiB/AlsB	1	1
Phage tail proteins	Cysteine proteinases	1	1
Glutathione synthetase ATP-binding domain-like	post-HMGL domain-like	1	1
P-loop containing nucleoside triphosphate hydrolases	Helical scaffold and wing domains of SecA	1	1
Putative DNA-binding domain	Probable bacterial effector-binding domain	1	1
Tetrapyrrole methylase	HemD-like	1	1
Carbon-nitrogen hydrolase	Adenine nucleotide alpha hydrolases-like	1	1
FMN-binding split barrel	UbiD C-terminal domain-like	1	1
Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains	Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains	1	1
FAD-binding/transporter-associated domain-like	Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase, MurB, C-terminal domain	1	1
GreA transcript cleavage protein, N-terminal domain	FKBP-like	1	1
Periplasmic binding protein-like II	Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain	1	1
P-loop containing nucleoside triphosphate hydrolases	TGS-like	1	1
CBS-domain pair	Inosine monophosphate dehydrogenase (IMPDH)	1	1
Ribonuclease PH domain 2-like	Ribonuclease PH domain 2-like	1	1
Prokaryotic type KH domain (KH-domain type II)	Ribosomal protein S3 C-terminal domain	1	1
DnaJ/Hsp40 cysteine-rich domain	HSP40/DnaJ peptide-binding domain	1	1
UROD/MetE-like	UROD/MetE-like	1	1
NEAT domain-like	L domain-like	1	1
Quinoprotein alcohol dehydrogenase-like	YVTN repeat-like/Quinoprotein amine dehydrogenase	1	1
RuvA domain 2-like	RuvA domain 2-like	1	1
Translation proteins	Initiation factor IF2/eIF5b, domain 3	1	1
RNase III domain-like	dsRNA-binding domain-like	1	1
Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain	Tetrapyrrole methylase	1	1
Trigger factor ribosome-binding domain	FKBP-like	1	1
Rudiment single hybrid motif	Aldolase	1	1
Subtilisin-like	Fibronectin type III	1	1
Thiamin diphosphate-binding fold (THDP-binding)	Pyruvate-ferredoxin oxidoreductase, PFOR, domain III	1	1
P-loop containing nucleoside triphosphate hydrolases	Class I glutamine amidotransferase-like	1	1
"Winged helix" DNA-binding domain	LexA/Signal peptidase	1	1
P-loop containing nucleoside triphosphate hydrolases	Prokaryotic type KH domain (KH-domain type II)	1	1
PurM N-terminal domain-like	PurM N-terminal domain-like	1	1
Insert subdomain of RNA polymerase alpha subunit	C-terminal domain of RNA polymerase alpha subunit	1	1
Ribosomal protein L7/12, oligomerisation (N-terminal) domain	ClpS-like	1	1
Eukaryotic type KH-domain (KH-domain type I)	Nucleic acid-binding proteins	1	1
Tp47 lipoprotein, N-terminal domain	Fibronectin type III	1	1
Nucleotide cyclase	Nucleotide cyclase	1	1
P-loop containing nucleoside triphosphate hydrolases	Smc hinge domain	1	1
Nucleic acid-binding proteins	S-adenosyl-L-methionine-dependent methyltransferases	1	1
Nudix	Nudix	1	1
Glutamyl tRNA-reductase catalytic, N-terminal domain	Glutamyl tRNA-reductase dimerization domain	1	1
S-adenosyl-L-methionine-dependent methyltransferases	NAD(P)-binding Rossmann-fold domains	1	1
Nucleotidylyl transferase	An anticodon-binding domain of class I aminoacyl-tRNA synthetases	1	1
Nucleotidylyl transferase	Alpha-L RNA-binding motif	1	1
Enolase N-terminal domain-like	Enolase C-terminal domain-like	1	1
Periplasmic binding protein-like II	Tetrapyrrole methylase	1	1
Sec-C motif	Creatinase/aminopeptidase	1	1
Ribosomal L11/L12e N-terminal domain	Ribosomal protein L11, C-terminal domain	1	1
GroEL-intermediate domain like	GroEL apical domain-like	1	1
ThrRS/AlaRS common domain	Class II aaRS ABD-related	1	1
Cation efflux protein transmembrane domain-like	Cation efflux protein cytoplasmic domain-like	1	1
Mechanosensitive channel protein MscS (YggB), transmembrane region	Sm-like ribonucleoproteins	1	1
Ribonuclease H-like	AF1531-like	1	1
LysM domain	LysM domain	1	1
P-loop containing nucleoside triphosphate hydrolases	SMR domain-like	1	1
post-HMGL domain-like	2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain	1	1
Radical SAM enzymes	RuvA domain 2-like	1	1
Rhodanese/Cell cycle control phosphatase	Adenine nucleotide alpha hydrolases-like	1	1
Metallo-hydrolase/oxidoreductase	Flavoproteins	1	1
S-adenosylmethionine synthetase	S-adenosylmethionine synthetase	1	1
UDP-Glycosyltransferase/glycogen phosphorylase	UDP-Glycosyltransferase/glycogen phosphorylase	1	1
Clc chloride channel	TrkA C-terminal domain-like	1	1
Chorismate mutase II	P-loop containing nucleoside triphosphate hydrolases	1	1
FMN-linked oxidoreductases	4Fe-4S ferredoxins	1	1
ParB/Sulfiredoxin	PUA domain-like	1	1
DNA clamp	DNA clamp	1	1
RuvA domain 2-like	P-loop containing nucleoside triphosphate hydrolases	1	1
Glutathione synthetase ATP-binding domain-like	Phosphohistidine domain	1	1
NAD(P)-binding Rossmann-fold domains	Siroheme synthase middle domains-like	1	1
NEAT domain-like	NEAT domain-like	1	1
Heat shock protein 70kD (HSP70), peptide-binding domain	Heat shock protein 70kD (HSP70), C-terminal subdomain	1	1
Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain	Nucleotidylyl transferase	1	1
P-loop containing nucleoside triphosphate hydrolases	Zinc beta-ribbon	1	1
TGS-like	Class II aaRS ABD-related	1	1
HD-domain/PDEase-like	ACT-like	1	1
N-terminal domain of DnaB helicase	P-loop containing nucleoside triphosphate hydrolases	1	1
L,D-transpeptidase pre-catalytic domain-like	L,D-transpeptidase catalytic domain-like	1	1
PUA domain-like	alpha/beta knot	1	1
FAD-binding/transporter-associated domain-like	CO dehydrogenase flavoprotein C-terminal domain-like	1	1
Aldolase	2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain	1	1
"Winged helix" DNA-binding domain	Iron-dependent repressor protein, dimerization domain	1	1
2Fe-2S ferredoxin-like	Fe-only hydrogenase	1	1
P-loop containing nucleoside triphosphate hydrolases	Pre-protein crosslinking domain of SecA	1	1
FucI/AraA N-terminal and middle domains	FucI/AraA C-terminal domain-like	1	1
TrpR-like	TrpR-like	1	1
PDZ domain-like	ClpP/crotonase	1	1
Dihydropteroate synthetase-like	Cobalamin (vitamin B12)-binding domain	1	1
Nqo1C-terminal domain-like	Nucleotide-binding domain	1	1
Sporulation response regulatory protein Spo0B	ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	1	1
C-terminal domain of transcriptional repressors	P-loop containing nucleoside triphosphate hydrolases	1	1
Ribosomal protein S5 domain 2-like	Ribonuclease PH domain 2-like	1	1
Adenine nucleotide alpha hydrolases-like	Argininosuccinate synthetase, C-terminal domain	1	1
P-loop containing nucleoside triphosphate hydrolases	ACT-like	1	1
MgtE N-terminal domain-like	CBS-domain pair	1	1
YjbR-like	Methylated DNA-protein cysteine methyltransferase, C-terminal domain	1	1
P-loop containing nucleoside triphosphate hydrolases	OmpH-like	1	1
Glutamine synthetase, N-terminal domain	Glutamine synthetase/guanido kinase	1	1
Prokaryotic type I DNA topoisomerase	Zinc beta-ribbon	1	1
Invasin/intimin cell-adhesion fragments	PLC-like phosphodiesterases	1	1
Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains	Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains	1	1
Adenine nucleotide alpha hydrolases-like	ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	1	1
"Winged helix" DNA-binding domain	NAD(P)-binding Rossmann-fold domains	1	1
Aspartate carbamoyltransferase, Regulatory-chain, N-terminal domain	Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain	1	1
dsRNA-binding domain-like	Ribosomal protein S5 domain 2-like	1	1
PreATP-grasp domain	Aldolase	1	1
Homeodomain-like	Ribonuclease H-like	1	1
Fibronectin type III	Hedgehog/DD-peptidase	1	1
Tp47 lipoprotein, middle and C-terminal domains	Fibronectin type III	1	1
Sensory domain-like	Nucleotide cyclase	1	1
Elongation factor Ts (EF-Ts), dimerisation domain	Elongation factor Ts (EF-Ts), dimerisation domain	1	1
Riboflavin synthase domain-like	Riboflavin synthase domain-like	1	1
Homocysteine S-methyltransferase	Cobalamin (vitamin B12)-binding domain	1	1
Nucleic acid-binding proteins	Putative DNA-binding domain	1	1
PK beta-barrel domain-like	Molybdenum cofactor biosynthesis proteins	1	1
TrkA C-terminal domain-like	TrkA C-terminal domain-like	1	1
Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain	Phosphoenolpyruvate/pyruvate domain	1	1
Cation efflux protein cytoplasmic domain-like	Cation efflux protein cytoplasmic domain-like	1	1
Putative DNA-binding domain	Anticodon-binding domain of PheRS	1	1
Nucleotidyltransferase	ACT-like	1	1
YjeF N-terminal domain-like	Ribokinase-like	1	1
lambda repressor-like DNA-binding domains	PLP-dependent transferases	1	1
Hsp33 domain	HSP33 redox switch-like	1	1
RuvA domain 2-like	Nucleic acid-binding proteins	1	1
DnaD domain-like	DnaD domain-like	1	1
KorB DNA-binding domain-like	PUA domain-like	1	1
Concanavalin A-like lectins/glucanases	Concanavalin A-like lectins/glucanases	1	1
Class II aaRS and biotin synthetases	C-terminal domain of ProRS	1	1
Class II aaRS ABD-related	C-terminal domain of ProRS	1	1
DNA-glycosylase	Nudix	1	1
Obg GTP-binding protein N-terminal domain	P-loop containing nucleoside triphosphate hydrolases	1	1
Homocysteine S-methyltransferase	Methionine synthase domain	1	1
MOP-like	MOP-like	1	1
ThrRS/AlaRS common domain	P-loop containing nucleoside triphosphate hydrolases	1	1

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