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Gene Ontology (GO)
GO depicts three complementary biological concepts including Biological Process (BP), Molecular Function (MF) and Cellular Component (CC). The hierarchical structure of GO is organized as a directed acyclic graph (DAG) by viewing an individual term as a node and its relations to parental terms (allowing for multiple parents) as directed edges. To navigate this hierarchy, we display all parental GO terms to the current GO term of interest ordered by their shortest distances to the current term. Also, only direct children GO terms of the current GO term are listed.

Structural Classification of Proteins (SCOP)
SCOP classifies evolutionary-related domains into Superfamily level and Family level. Accordingly, we have generated the domain-centric GO annotations for each of the three concepts at each of the two domain levels.

Structural Domain Functional Ontology (SDFO)
As domain-centric ontology, SDFO only refers to those GO terms which are the most informative to annotate SCOP domains.

GO annotations for SCOP domains
For details, please visit Documentation: GO annotations for SCOP domains. Therein, we provide several relevant files (Data Availability) for the download. It includes two mapping results: Domain2GO supported by both, and Domain2GO supported only by all. For each mapping result, the ontology and annotation files are available. The annotation (i.e., Domain2GO_supported_by_both.txt) and the corresponding ontology (i.e., SDFO.both.txt) are suitable for small-scale studies (high-quality, and BROWSABLE BELOW), while the annotation (i.e., Domain2GO_supported_only_by_all.txt) and the corresponding ontology (i.e., SDFO.all.txt) for large-scale studies (high-coverage, like functional enrichment analysis).

Supra-domain Functional Ontology (SPFO)
As an extension, SPFO includes those GO terms which are the most informative to annotate supra-domains and individual SCOP domains at the Superfamily level.

GO annotations for Supra-domains
For details, please visit Documentation: GO annotations for Supra-domains. Therein, we provide several relevant files (Data Availability) for the download, including a annotation file (i.e., SP2GO.txt) and an ontology (i.e., SPFO.txt). For the sake of being browsable, listed below are those supra-domains (single, dual, triple, quad).

Superfamily domains annotated to this GO term (SDFO level: Informative)
Highlighted in gray are those with either FDR_singleton>0.001 or FDR_all>0.001

SCOP term	FDR (singleton)	FDR (all)	Annotation (direct or inherited)
(Phosphotyrosine protein) phosphatases II	0	0	DIRECT
Acid phosphatase/Vanadium-dependent haloperoxidase	0	0	DIRECT
Carbohydrate phosphatase	0	0	DIRECT
HAD-like	0	0	DIRECT
Metallo-dependent phosphatases	3.332e-06	0	DIRECT
Phosphoglycerate mutase-like	0	0	DIRECT
Phospholipase D/nuclease	3.503e-14	0	DIRECT
Phosphotyrosine protein phosphatases I	0	0	DIRECT
PP2C-like	0	0	DIRECT
DNase I-like	0.819	1.031e-10	INHERITED FROM: phosphatidylinositol phosphate phosphatase activity || phosphatidylinositol bisphosphate phosphatase activity || phosphatidylinositol phosphate 5-phosphatase activity
Nudix	0.001264	0.5	INHERITED FROM: nucleotide phosphatase activity
PLC-like phosphodiesterases	0.003702	3.82e-15	INHERITED FROM: phosphoric diester hydrolase activity || glycerophosphodiester phosphodiesterase activity
Alkaline phosphatase-like	0.4575	1	INHERITED FROM: phosphoric diester hydrolase activity || alkaline phosphatase activity || glycerophosphocholine cholinephosphodiesterase activity
Ubiquitin-like	0.1846	0.07579	INHERITED FROM: protein tyrosine phosphatase activity || non-membrane spanning protein tyrosine phosphatase activity
Calcium-dependent phosphotriesterase	1	1	INHERITED FROM: aryldialkylphosphatase activity

Family domains annotated to this GO term (Not in SDFO)
Highlighted in gray are those with either FDR_singleton>0.001 or FDR_all>0.001

SCOP term	FDR (singleton)	FDR (all)	Annotation (direct or inherited)
5'(3')-deoxyribonucleotidase (dNT-2)	0	0	DIRECT
Alkaline phosphatase	0	0	DIRECT
beta-Phosphoglucomutase-like	5.308e-11	8.876e-11	DIRECT
Cell cycle control phosphatase, catalytic domain	0	0	DIRECT
Dual specificity phosphatase-like	0	0	DIRECT
Enolase-phosphatase E1	3.916e-15	9.419e-15	DIRECT
First domain of FERM	6.639e-08	3.705e-11	DIRECT
GlpX-like bacterial fructose-1,6-bisphosphatase	6.917e-11	4.082e-11	DIRECT
Glycerophosphoryl diester phosphodiesterase	9.697e-09	2.177e-10	DIRECT
GpdQ-like	6.917e-11	9.882e-10	DIRECT
HEAT repeat	2.592e-08	1.871e-06	DIRECT
Higher-molecular-weight phosphotyrosine protein phosphatases	1.009e-15	0	DIRECT
Histidine acid phosphatase	0	0	DIRECT
Histidinol phosphatase-like	0	0	DIRECT
Inositol monophosphatase/fructose-1,6-bisphosphatase-like	0	0	DIRECT
Inositol polyphosphate 5-phosphatase (IPP5)	0	0	DIRECT
Low-molecular-weight phosphotyrosine protein phosphatases	0	0	DIRECT
NagD-like	0	0	DIRECT
NLI interacting factor-like phosphatase	0	0	DIRECT
Nuclease	5.129e-16	0	DIRECT
Phosphoserine phosphatase	0	0	DIRECT
PP2C-like	0	0	DIRECT
Predicted hydrolases Cof	0	0	DIRECT
Purple acid phosphatase-like	3.318e-12	0	DIRECT
MutT-like	5.744e-05	0.3848	INHERITED FROM: nucleotide phosphatase activity
Serum paraoxonase/arylesterase 1, PON1	0.2835	0.3962	INHERITED FROM: aryldialkylphosphatase activity || phosphatase activity

Trees by TreeVector

A presence/absence matrix is generated using protein domains and supradomains for all genomes in SUPERFAMILY. The RAxML software is used to produce a single, large tree topology using heuristic parsimony methods. Genome combinations, or specific clades, can be displayed as if individual trees had been produced. However, this data is extracted from the single large tree. This produces a higher quality topology than if the trees had been produced on their own, and allows the trees to be displayed instantly.

Supra-domains annotated to this GO term (SPFO level: Informative)
Highlighted in gray are those with FDR>0.001

Supra-domain (Single)	FDR (all)	Annotation (direct or inherited)
Phosphoglycerate mutase-like	0	DIRECT
5'-nucleotidase (syn. UDP-sugar hydrolase), C-terminal domain	0	DIRECT
Fibronectin type III	0	DIRECT
GAF domain-like	0	DIRECT
Phospholipase D/nuclease	0	DIRECT
PP2C-like	0	DIRECT
Phosphotyrosine protein phosphatases I	0	DIRECT
Acid phosphatase/Vanadium-dependent haloperoxidase	0	DIRECT
(Phosphotyrosine protein) phosphatases II	0	DIRECT
PH domain-like	0	DIRECT
Carbohydrate phosphatase	0	DIRECT
HD-domain/PDEase-like	0	DIRECT
HAD-like	0	DIRECT
Protein serine/threonine phosphatase 2C, C-terminal domain	0	DIRECT
Metallo-dependent phosphatases	0	DIRECT
Rhodanese/Cell cycle control phosphatase	0	DIRECT
Purple acid phosphatase, N-terminal domain	0	DIRECT
PLC-like phosphodiesterases	2.866e-15	DIRECT
SH2 domain	1.087e-13	DIRECT
C2 domain (Calcium/lipid-binding domain, CaLB)	3.268e-13	DIRECT
C-terminal domain of PLC-beta	1.111e-12	DIRECT
DNase I-like	7.881e-11	DIRECT
YutG-like	9.41e-09	DIRECT
EF-hand	3.413e-08	DIRECT
Integrin alpha N-terminal domain	1.777e-07	DIRECT
Second domain of FERM	6.5e-07	DIRECT
EAL domain-like	0.0001831	DIRECT
CYTH-like phosphatases	0.0005757	DIRECT
PX domain	0.0006593	DIRECT
PHP14-like	0.0007778	DIRECT
Homodimeric domain of signal transducing histidine kinase	0.0007895	DIRECT
Nucleotide cyclase	0.5832	INHERITED FROM: cyclic-guanylate-specific phosphodiesterase activity
UBA-like	0.9877	INHERITED FROM: 5'-tyrosyl-DNA phosphodiesterase activity || phosphoric diester hydrolase activity || tyrosyl-DNA phosphodiesterase activity
GTPase activation domain, GAP	0.1333	INHERITED FROM: phosphatidylinositol phosphate phosphatase activity || inositol phosphate phosphatase activity || phosphatidylinositol bisphosphate phosphatase activity
RNA-binding domain, RBD	1	INHERITED FROM: phosphatidylinositol phosphate phosphatase activity || inositol-polyphosphate 5-phosphatase activity || inositol trisphosphate phosphatase activity || phosphatidylinositol bisphosphate phosphatase activity || phosphatidylinositol phosphate 5-phosphatase activity
FYVE/PHD zinc finger	0.5681	INHERITED FROM: phosphatidylinositol phosphate phosphatase activity || phosphatidylinositol-3-phosphatase activity || protein tyrosine/serine/threonine phosphatase activity
alpha/beta-Hydrolases	1	INHERITED FROM: lipid phosphatase activity
Ankyrin repeat	1	INHERITED FROM: myosin phosphatase activity
Nudix	0.45	INHERITED FROM: diphosphoric monoester hydrolase activity || nucleotide phosphatase activity
Saposin	0.7531	INHERITED FROM: phosphoric diester hydrolase activity || sphingomyelin phosphodiesterase activity
PYP-like sensor domain (PAS domain)	0.003862	INHERITED FROM: phosphoric diester hydrolase activity || 3',5'-cyclic-nucleotide phosphodiesterase activity
Metallo-hydrolase/oxidoreductase	1	INHERITED FROM: phosphoric diester hydrolase activity || 3',5'-cyclic-nucleotide phosphodiesterase activity
Tubby C-terminal domain-like	0.02892	INHERITED FROM: phosphoric diester hydrolase activity
UDP-Glycosyltransferase/glycogen phosphorylase	0.03467	INHERITED FROM: trehalose-phosphatase activity || carbohydrate phosphatase activity
Concanavalin A-like lectins/glucanases	0.3693	INHERITED FROM: phosphoprotein phosphatase activity || transmembrane receptor protein phosphatase activity || protein tyrosine phosphatase activity || transmembrane receptor protein tyrosine phosphatase activity
Immunoglobulin	0.6497	INHERITED FROM: phosphoprotein phosphatase activity || transmembrane receptor protein phosphatase activity || protein tyrosine phosphatase activity || transmembrane receptor protein tyrosine phosphatase activity
Ubiquitin-like	0.06533	INHERITED FROM: phosphoprotein phosphatase activity || protein tyrosine phosphatase activity || non-membrane spanning protein tyrosine phosphatase activity
CRAL/TRIO N-terminal domain	0.003938	INHERITED FROM: phosphoprotein phosphatase activity || protein tyrosine phosphatase activity
Carbonic anhydrase	0.004342	INHERITED FROM: phosphoprotein phosphatase activity || protein tyrosine phosphatase activity
CRAL/TRIO domain	0.005882	INHERITED FROM: phosphoprotein phosphatase activity || protein tyrosine phosphatase activity
PDZ domain-like	0.4	INHERITED FROM: phosphoprotein phosphatase activity || protein tyrosine phosphatase activity
ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	0.03699	INHERITED FROM: phosphoprotein phosphatase activity
ACT-like	0.05819	INHERITED FROM: phosphoserine phosphatase activity
SH3-domain	0.4326	INHERITED FROM: phospholipase C activity || phosphoric diester hydrolase activity || phosphatidylinositol phospholipase C activity
Family A G protein-coupled receptor-like	1	INHERITED FROM: phospholipase C activity || phosphoric diester hydrolase activity
Ras GEF	0.2194	INHERITED FROM: phospholipase C activity || phosphatidylinositol phospholipase C activity
Alkaline phosphatase-like	1	INHERITED FROM: phosphodiesterase I activity || phosphoric diester hydrolase activity || alkaline phosphatase activity || glycerophosphocholine cholinephosphodiesterase activity
Somatomedin B domain	0.5218	INHERITED FROM: phosphodiesterase I activity || phosphoric diester hydrolase activity
His-Me finger endonucleases	0.9953	INHERITED FROM: phosphodiesterase I activity || phosphoric diester hydrolase activity
CheY-like	0.1252	INHERITED FROM: 3',5'-cyclic-AMP phosphodiesterase activity || 3',5'-cyclic-nucleotide phosphodiesterase activity || cyclic-nucleotide phosphodiesterase activity
LigT-like	0.09481	INHERITED FROM: 2',3'-cyclic-nucleotide 3'-phosphodiesterase activity || phosphoric diester hydrolase activity || cyclic-nucleotide phosphodiesterase activity
P-loop containing nucleoside triphosphate hydrolases	1	INHERITED FROM: 2',3'-cyclic-nucleotide 3'-phosphodiesterase activity || fructose-2,6-bisphosphate 2-phosphatase activity || polynucleotide 3'-phosphatase activity
Calcium-dependent phosphotriesterase	1	INHERITED FROM: aryldialkylphosphatase activity
Calcium ATPase, transmembrane domain M	0.4072	INHERITED FROM: 4-nitrophenylphosphatase activity
Metal cation-transporting ATPase, ATP-binding domain N	0.4883	INHERITED FROM: 4-nitrophenylphosphatase activity

Supra-domains annotated to this GO term (SPFO level: Informative)
Highlighted in gray are those with FDR>0.001

Supra-domain (Duplex) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
56219,54928 56219 - DNase I-like 54928 - RNA-binding domain, RBD	0	DIRECT
47473,51695 47473 - EF-hand 51695 - PLC-like phosphodiesterases	0	DIRECT
48452,56300 48452 - TPR-like 56300 - Metallo-dependent phosphatases	0	DIRECT
52540,55144 52540 - P-loop containing nucleoside triphosphate hydrolases 55144 - LigT-like	0	DIRECT
55781,109604 55781 - GAF domain-like 109604 - HD-domain/PDEase-like	0	DIRECT
51695,49562 51695 - PLC-like phosphodiesterases 49562 - C2 domain (Calcium/lipid-binding domain, CaLB)	0	DIRECT
49363,56300 49363 - Purple acid phosphatase, N-terminal domain 56300 - Metallo-dependent phosphatases	0	DIRECT
49899,48726 49899 - Concanavalin A-like lectins/glucanases 48726 - Immunoglobulin	0	DIRECT
52799,52799 52799 - (Phosphotyrosine protein) phosphatases II 52799 - (Phosphotyrosine protein) phosphatases II	0	DIRECT
52821,52799 52821 - Rhodanese/Cell cycle control phosphatase 52799 - (Phosphotyrosine protein) phosphatases II	0	DIRECT
56024,56024 56024 - Phospholipase D/nuclease 56024 - Phospholipase D/nuclease	0	DIRECT
52087,52799 52087 - CRAL/TRIO domain 52799 - (Phosphotyrosine protein) phosphatases II	0	DIRECT
50729,47473 50729 - PH domain-like 47473 - EF-hand	0	DIRECT
50729,52799 50729 - PH domain-like 52799 - (Phosphotyrosine protein) phosphatases II	0	DIRECT
55781,55781 55781 - GAF domain-like 55781 - GAF domain-like	0	DIRECT
81606,81601 81606 - PP2C-like 81601 - Protein serine/threonine phosphatase 2C, C-terminal domain	0	DIRECT
52799,49562 52799 - (Phosphotyrosine protein) phosphatases II 49562 - C2 domain (Calcium/lipid-binding domain, CaLB)	0	DIRECT
50044,51695 50044 - SH3-domain 51695 - PLC-like phosphodiesterases	0	DIRECT
55550,52799 55550 - SH2 domain 52799 - (Phosphotyrosine protein) phosphatases II	0	DIRECT
50156,52799 50156 - PDZ domain-like 52799 - (Phosphotyrosine protein) phosphatases II	0	DIRECT
55550,55550 55550 - SH2 domain 55550 - SH2 domain	0	DIRECT
53756,56784 53756 - UDP-Glycosyltransferase/glycogen phosphorylase 56784 - HAD-like	0	DIRECT
49265,49265 49265 - Fibronectin type III 49265 - Fibronectin type III	0	DIRECT
50729,56024 50729 - PH domain-like 56024 - Phospholipase D/nuclease	0	DIRECT
56300,55816 56300 - Metallo-dependent phosphatases 55816 - 5'-nucleotidase (syn. UDP-sugar hydrolase), C-terminal domain	0	DIRECT
48726,49265 48726 - Immunoglobulin 49265 - Fibronectin type III	2.051e-14	DIRECT
49562,56024 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 56024 - Phospholipase D/nuclease	2.731e-13	DIRECT
46934,56219 46934 - UBA-like 56219 - DNase I-like	4.422e-13	DIRECT
56300,47473 56300 - Metallo-dependent phosphatases 47473 - EF-hand	6.698e-10	DIRECT
55550,50044 55550 - SH2 domain 50044 - SH3-domain	2.663e-09	DIRECT
53649,54060 53649 - Alkaline phosphatase-like 54060 - His-Me finger endonucleases	4.549e-09	DIRECT
64268,50729 64268 - PX domain 50729 - PH domain-like	5.392e-09	DIRECT
52540,53254 52540 - P-loop containing nucleoside triphosphate hydrolases 53254 - Phosphoglycerate mutase-like	8.62e-09	DIRECT
51069,49265 51069 - Carbonic anhydrase 49265 - Fibronectin type III	1.844e-08	DIRECT
54236,47031 54236 - Ubiquitin-like 47031 - Second domain of FERM	2.557e-08	DIRECT
56784,53474 56784 - HAD-like 53474 - alpha/beta-Hydrolases	3.101e-08	DIRECT
47031,50729 47031 - Second domain of FERM 50729 - PH domain-like	1.752e-07	DIRECT
49562,54236 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 54236 - Ubiquitin-like	4.764e-07	DIRECT
56784,52540 56784 - HAD-like 52540 - P-loop containing nucleoside triphosphate hydrolases	4.764e-07	DIRECT
52799,56091 52799 - (Phosphotyrosine protein) phosphatases II 56091 - DNA ligase/mRNA capping enzyme, catalytic domain	2.99e-06	DIRECT
52172,52172 52172 - CheY-like 52172 - CheY-like	3.54e-05	DIRECT
47384,55874 47384 - Homodimeric domain of signal transducing histidine kinase 55874 - ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	0.000635	DIRECT
55073,141868 55073 - Nucleotide cyclase 141868 - EAL domain-like	0.01253	INHERITED FROM: phosphoric diester hydrolase activity || cyclic-guanylate-specific phosphodiesterase activity
48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin	1	INHERITED FROM: protein tyrosine phosphatase activity || transmembrane receptor protein tyrosine phosphatase activity
55550,56112 55550 - SH2 domain 56112 - Protein kinase-like (PK-like)	0.001825	INHERITED FROM: phosphoprotein phosphatase activity || phosphatase activity || protein serine/threonine phosphatase activity
50044,55550 50044 - SH3-domain 55550 - SH2 domain	0.003279	INHERITED FROM: phosphoprotein phosphatase activity || phosphatase activity || protein serine/threonine phosphatase activity
46938,52087 46938 - CRAL/TRIO N-terminal domain 52087 - CRAL/TRIO domain	0.003217	INHERITED FROM: phosphoprotein phosphatase activity || protein tyrosine phosphatase activity || phosphatase activity
54236,54236 54236 - Ubiquitin-like 54236 - Ubiquitin-like	0.03397	INHERITED FROM: phospholipase C activity || phosphoric diester hydrolase activity || phosphatidylinositol phospholipase C activity
90188,53649 90188 - Somatomedin B domain 53649 - Alkaline phosphatase-like	0.06226	INHERITED FROM: phosphodiesterase I activity || phosphoric diester hydrolase activity
90188,90188 90188 - Somatomedin B domain 90188 - Somatomedin B domain	0.5218	INHERITED FROM: phosphodiesterase I activity || phosphoric diester hydrolase activity
56784,81665 56784 - HAD-like 81665 - Calcium ATPase, transmembrane domain M	0.2547	INHERITED FROM: 4-nitrophenylphosphatase activity
81660,56784 81660 - Metal cation-transporting ATPase, ATP-binding domain N 56784 - HAD-like	0.441	INHERITED FROM: 4-nitrophenylphosphatase activity

Supra-domains annotated to this GO term (SPFO level: Informative)
Highlighted in gray are those with FDR>0.001

Supra-domain (Triple) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
46938,52087,52799 46938 - CRAL/TRIO N-terminal domain 52087 - CRAL/TRIO domain 52799 - (Phosphotyrosine protein) phosphatases II	0	DIRECT
55781,55781,109604 55781 - GAF domain-like 55781 - GAF domain-like 109604 - HD-domain/PDEase-like	0	DIRECT
50044,51695,49562 50044 - SH3-domain 51695 - PLC-like phosphodiesterases 49562 - C2 domain (Calcium/lipid-binding domain, CaLB)	0	DIRECT
49899,48726,49265 49899 - Concanavalin A-like lectins/glucanases 48726 - Immunoglobulin 49265 - Fibronectin type III	0	DIRECT
48726,49265,49265 48726 - Immunoglobulin 49265 - Fibronectin type III 49265 - Fibronectin type III	0	DIRECT
55550,55550,52799 55550 - SH2 domain 55550 - SH2 domain 52799 - (Phosphotyrosine protein) phosphatases II	0	DIRECT
55550,55550,50044 55550 - SH2 domain 55550 - SH2 domain 50044 - SH3-domain	0	DIRECT
47473,51695,49562 47473 - EF-hand 51695 - PLC-like phosphodiesterases 49562 - C2 domain (Calcium/lipid-binding domain, CaLB)	0	DIRECT
55781,55781,55781 55781 - GAF domain-like 55781 - GAF domain-like 55781 - GAF domain-like	0	DIRECT
50729,47473,51695 50729 - PH domain-like 47473 - EF-hand 51695 - PLC-like phosphodiesterases	0	DIRECT
55550,50044,51695 55550 - SH2 domain 50044 - SH3-domain 51695 - PLC-like phosphodiesterases	0	DIRECT
64268,50729,56024 64268 - PX domain 50729 - PH domain-like 56024 - Phospholipase D/nuclease	2.623e-10	DIRECT
90188,53649,54060 90188 - Somatomedin B domain 53649 - Alkaline phosphatase-like 54060 - His-Me finger endonucleases	1.909e-09	DIRECT
54236,47031,50729 54236 - Ubiquitin-like 47031 - Second domain of FERM 50729 - PH domain-like	5.953e-08	DIRECT
49562,54236,54236 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 54236 - Ubiquitin-like 54236 - Ubiquitin-like	4.764e-07	DIRECT
49265,49265,49265 49265 - Fibronectin type III 49265 - Fibronectin type III 49265 - Fibronectin type III	7.784e-07	DIRECT
50729,56024,56024 50729 - PH domain-like 56024 - Phospholipase D/nuclease 56024 - Phospholipase D/nuclease	2.99e-06	DIRECT
56024,56024,56024 56024 - Phospholipase D/nuclease 56024 - Phospholipase D/nuclease 56024 - Phospholipase D/nuclease	2.99e-06	DIRECT
52799,56091,50249 52799 - (Phosphotyrosine protein) phosphatases II 56091 - DNA ligase/mRNA capping enzyme, catalytic domain 50249 - Nucleic acid-binding proteins	2.99e-06	DIRECT
50044,55550,56112 50044 - SH3-domain 55550 - SH2 domain 56112 - Protein kinase-like (PK-like)	0.0001954	DIRECT
48726,48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin 48726 - Immunoglobulin	0.9105	INHERITED FROM: protein tyrosine phosphatase activity || transmembrane receptor protein tyrosine phosphatase activity
48726,48726,49265 48726 - Immunoglobulin 48726 - Immunoglobulin 49265 - Fibronectin type III	0.005189	INHERITED FROM: phosphoprotein phosphatase activity || transmembrane receptor protein phosphatase activity || protein tyrosine phosphatase activity || phosphatase activity || transmembrane receptor protein tyrosine phosphatase activity
90188,90188,53649 90188 - Somatomedin B domain 90188 - Somatomedin B domain 53649 - Alkaline phosphatase-like	0.06226	INHERITED FROM: phosphodiesterase I activity || phosphoric diester hydrolase activity
81660,56784,81665 81660 - Metal cation-transporting ATPase, ATP-binding domain N 56784 - HAD-like 81665 - Calcium ATPase, transmembrane domain M	0.4198	INHERITED FROM: 4-nitrophenylphosphatase activity

Trees by TreeVector

A presence/absence matrix is generated using protein domains and supradomains for all genomes in SUPERFAMILY. The RAxML software is used to produce a single, large tree topology using heuristic parsimony methods. Genome combinations, or specific clades, can be displayed as if individual trees had been produced. However, this data is extracted from the single large tree. This produces a higher quality topology than if the trees had been produced on their own, and allows the trees to be displayed instantly.