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Phenotype Ontology
Like Gene Ontology (GO), phenotypy ontology classifies and organizes gene-mutant/null phenotypic information from the very general at the top to more specific terms in the 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 phenotypic terms to the current phenotypic term of interest ordered by their shortest distances to the current term. Also, only direct children phenotypic terms of the current phenotypic term are listed. Phenotype ontologies we have incorporated are as follows:

• Disease Ontology (DO) Ontology (DO)
  DO semantically integrates disease and medical vocabularies through extensive cross mapping of DO terms to MeSH, ICD, NCI thesaurus, SNOMED and OMIM.
  
• Human Phenotype (HP) Ontology (HP)
  HP captures phenotypic abnormalities that are described in OMIM, along with the corresponding disease-causing genes. It includes three complementary biological concepts: Mode_of_Inheritance (MI), ONset_and_clinical_course (ON), and Phenotypic_Abnormality (PA).
  
• Mouse Phenotype (MP) Ontology (MP)
  MP describes phenotypes of the mouse after a specific gene is genetically disrupted. Using it, Mouse Genome Informatics (MGI) provides high-coverate gene-level phenotypes for the mouse.
  
• Worm Phenotype (WP) Ontology (WP)
  WP classifies and organizes phenotype descriptions for C. elegans and other nematodes. Using it, WormBase provides primary resource for phenotype annotations for C. elegans.
  
• Yeast Phenotype (YP) Ontology (YP)
  Based on YP which is the major contributor to the Ascomycete phenotype ontology, Saccharomyces Genome Database (SGD) provides single mutant phenotypes for every gene in the yeast genome.
  
• Fly Phenotype (FP) Ontology (FP)
  FP refers to FlyBase controlled vocabulary. Specifically, a structured controlled vocabulary is used for the annotation of alleles (for their mutagen etc) in FlyBase.
  
• Fly Anatomy (FA) Ontology (FA)
  FA is a structured controlled vocabulary of the anatomy of Drosophila melanogaster, used for the description of phenotypes and where a gene is expressed.
  
• Zebrafish Anatomy (ZA) Ontology (ZA)
  ZA displays anatomical terms of the zebrafish using standard anatomical nomenclature, together with affected genes.
  
• Xenopus Anatomy (XA) Ontology (XA)
  XA represents the lineage of tissues and the timing of development for frogs (Xenopus laevis and Xenopus tropicalis). It is used to annotate Xenopus gene expression patterns and mutant and morphant phenotypes.
  
• Arabidopsis Plant Ontology (AP) Ontology (AP)
  As a major contributor to Plant Ontology which describes plant anatomical and morphological structures (AN) and growth and developmental stages (DE), the Arabidopsis Information Resource (TAIR) provides arabidopsis plant ontology annotations for the model higher plant Arabidopsis thaliana.
  
• Enzyme Commission (EC) Ontology (EC)
  Each enzyme is allocated a four-digit EC number, the first three digits of which define the reaction catalysed and the fourth of which is a unique identifier (serial number). Each enzyme is also assigned a systematic name that uniquely defines the reaction catalysed.
  
• DrugBank ATC (DB) Ontology (DB)
  In the Anatomical Therapeutic Chemical (ATC) classification system, drugs are classified in groups at five different levels according to the organ or system (1st level, anatomical main group) on which they act and their therapeutic (2nd level, therapeutic subgroup), pharmacological (3rd level, pharmacological subgroup) and chemical properties (4th level, chemical subgroup; 5th level, chemical substance). Only drugs in DrugBank are considered.
  
• UniProtKB KeyWords (KW) Ontology (KW)
  Keywords in UniProtKB are controlled vocabulary, providing a summary of the entry content and are used to index UniProtKB/Swiss-Prot entries based on 10 categories (the category "Technical term" being excluded here). Each keyword is attributed manually to UniProtKB/Swiss-Prot entries and automatically to UniProtKB/TrEMBL entries (according to specific annotation rules).
  
• UniProtKB UniPathway (UP) Ontology (UP)
  UP is a fully manually curated resource for the representation and annotation of metabolic pathways, being used as controlled vocabulary for pathway annotation in UniProtKB.
  

Structural Domain Phenotype Ontology and its Annotations
Structural Classification of Proteins (SCOP) classifies evolutionary-related domains into Superfamily level and Family level. Using the phenotype ontologies above, we have generated the domain-centric phenotype annotations, and further identified those phenotype terms which are the most informative to annotate SCOP domains. Promisingly, domain-centric phenotypic annotations can serve as an alternative starting point to explore genotype-phenotype relationships. We provide several relevant files for the download, including the annotation and the corresponding ontology for each phenotype ontology.

• Structural Domain Disease Ontology (DO) Ontology (SDDO) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2DO.txt, and the corresponding ontology:SDDO.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Human Phenotype (HP) Ontology (SDHP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2HP.txt, and the corresponding ontology:SDHP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Mouse Phenotype (MP) Ontology (SDMP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2MP.txt, and the corresponding ontology:SDMP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Worm Phenotype (WP) Ontology (SDWP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2WP.txt, and the corresponding ontology:SDWP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Yeast Phenotype (YP) Ontology (SDYP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2YP.txt, and the corresponding ontology:SDYP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Fly Phenotype (FP) Ontology (SDFP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2FP.txt, and the corresponding ontology:SDFP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Fly Anatomy (FA) Ontology (SDFA) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2FA.txt, and the corresponding ontology:SDFA.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Zebrafish Anatomy (ZA) Ontology (SDZA) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2ZA.txt, and the corresponding ontology:SDZA.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Xenopus Anatomy (XA) Ontology (SDXA) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2XA.txt, and the corresponding ontology:SDXA.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Arabidopsis Plant Ontology (AP) Ontology (SDAP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2AP.txt, and the corresponding ontology:SDAP.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain Enzyme Commission (EC) Ontology (SDEC) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2EC.txt, and the corresponding ontology:SDEC.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain DrugBank ATC (DB) Ontology (SDDB) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2DB.txt, and the corresponding ontology:SDDB.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain UniProtKB KeyWords (KW) Ontology (SDKW) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2KW.txt, and the corresponding ontology:SDKW.txt) and mysql tables (Domain2PO.sql.gz).
  
• Structural Domain UniProtKB UniPathway (UP) Ontology (SDUP) and its Annotations:
  For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2UP.txt, and the corresponding ontology:SDUP.txt) and mysql tables (Domain2PO.sql.gz).
  

Supra-domain Phenotype Ontology and its Annotations
Although domain-centric annotations hold great promise in describing phenotypic nature of independent domains, most domains themselves may not just work alone. In multi-domain proteins, they may be combined together to form distinct domain architectures. The recombination of the existing domains is considered as one of major driving forces for phenotypic diversificaation. As an extension, we have also generated supra-domain phenotype ontology and its annotations. Compared to domain-centric phenotype ontology and annotations (SCOP domains at the Superfamily level and Family level), this version focuses on supra-domains and individual SCOP domains ONLY at the Superfamily level. Besides, in terms of individual superfamilies, their annotations from the domain-centric version may be different from those from supra-domains version. Depending on your focus, the former should be used for the consideration of both the Superfamily level and Family level, otherwise the latter should be used if you are interested in domain combinations. Also, we provide several relevant files for the download, including the annotation and the corresponding ontology for each phenotype ontology.

• Supra-domain Domain Disease Ontology (DO) Ontology (SPDO) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2DO.txt, and the corresponding ontology:SPDO.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Human Phenotype (HP) Ontology (SPHO) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2HP.txt, and the corresponding ontology:SPHO.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Mouse Phenotype (MP) Ontology (SPMP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2MP.txt, and the corresponding ontology:SPMP.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Worm Phenotype (WP) Ontology (SPWP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2WP.txt, and the corresponding ontology:SPWP.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Yeast Phenotype (YP) Ontology (SPYP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2YP.txt, and the corresponding ontology:SPYP.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Fly Phenotype (FP) Ontology (SPFP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2FP.txt, and the corresponding ontology:SPFP.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Fly Anatomy (FA) Ontology (SPFA) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2FA.txt, and the corresponding ontology:SPFA.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Zebrafish Anatomy (ZA) Ontology (SPZA) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2ZA.txt, and the corresponding ontology:SPZA.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Xenopus Anatomy (XA) Ontology (SPXA) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2XA.txt, and the corresponding ontology:SPXA.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Arabidopsis Plant Ontology (AP) Ontology (SPAP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2AP.txt, and the corresponding ontology:SPAP.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain Enzyme Commission (EC) Ontology (SPEC) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2EC.txt, and the corresponding ontology:SPEC.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain DrugBank ATC (DB) Ontology (SPDB) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2DB.txt, and the corresponding ontology:SPDB.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain UniProtKB KeyWords (KW) Ontology (SPKW) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2KW.txt, and the corresponding ontology:SPKW.txt) and mysql tables (SP2PO.sql.gz).
  
• Supra-domain Domain UniProtKB UniPathway (UP) Ontology (SPUP) and its Annotations:
  For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2UP.txt, and the corresponding ontology:SPUP.txt) and mysql tables (SP2PO.sql.gz).
  

Superfamily domains annotated to this EC term (Not in SDEC)
Highlighted in gray are those with FDR_all>0.001

SCOP term	FDR (all)	Annotation (direct or inherited)
Carbon-nitrogen hydrolase	0	DIRECT
Probable ACP-binding domain of malonyl-CoA ACP transacylase	0	DIRECT
PABC (PABP) domain	0	DIRECT
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
FabD/lysophospholipase-like	0	DIRECT
Hect, E3 ligase catalytic domain	0	DIRECT
Nucleotide-diphospho-sugar transferases	0	DIRECT
FYVE/PHD zinc finger	0	DIRECT
Ankyrin repeat	0	DIRECT
NRDP1 C-terminal domain-like	0	DIRECT
Trimeric LpxA-like enzymes	0	DIRECT
DmpA/ArgJ-like	0	DIRECT
Aldolase	0	DIRECT
Glycerol-3-phosphate (1)-acyltransferase	0	DIRECT
Thiolase-like	0	DIRECT
Malate synthase G	0	DIRECT
RING/U-box	0	DIRECT
ACP-like	0	DIRECT
CoA-dependent acyltransferases	0	DIRECT
Kix domain of CBP (creb binding protein)	0	DIRECT
CCHHC domain	0	DIRECT
TAZ domain	0	DIRECT
Trimerization domain of TRAF	0	DIRECT
Actin-like ATPase domain	0	DIRECT
PA domain	0	DIRECT
SWIB/MDM2 domain	0	DIRECT
UBC-like	0	DIRECT
TRAF domain-like	0	DIRECT
N-terminal domain of cbl (N-cbl)	0	DIRECT
TTHA0583/YokD-like	0	DIRECT
Concanavalin A-like lectins/glucanases	0	DIRECT
Single hybrid motif	0	DIRECT
Inhibitor of apoptosis (IAP) repeat	0	DIRECT
CHY zinc finger-like	0	DIRECT
alpha/beta-Hydrolases	0	DIRECT
Nuclear receptor coactivator interlocking domain	0	DIRECT
OMPA-like	0	DIRECT
Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
Leucine zipper domain	0	DIRECT
post-HMGL domain-like	0	DIRECT
Formylmethanofuran:tetrahydromethanopterin formyltransferase	0	DIRECT
ClpS-like	0	DIRECT
WW domain	0	DIRECT
Bromodomain	0	DIRECT
HprK N-terminal domain-like	0	DIRECT
B-box zinc-binding domain	0	DIRECT
Citrate synthase	0	DIRECT
Mib/herc2 domain-like	0	DIRECT
HLH, helix-loop-helix DNA-binding domain	0	DIRECT
2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain	0	DIRECT
Transglutaminase, two C-terminal domains	0	DIRECT
ARM repeat	0	DIRECT
WWE domain	0	DIRECT
Isocitrate/Isopropylmalate dehydrogenase-like	0	DIRECT
CCCH zinc finger	0	DIRECT
NHL repeat	0	DIRECT
Zinc hairpin stack	0	DIRECT
Docking domain B of the erythromycin polyketide synthase (DEBS)	0	DIRECT
Ran binding protein zinc finger-like	5.081e-16	DIRECT
Chromo domain-like	0.000000000000009908	DIRECT
WD40 repeat-like	0.00000000000003998	DIRECT
Class II aaRS and biotin synthetases	0.0000000000005383	DIRECT
SAP domain	0.00000000005425	DIRECT
Pentapeptide repeat-like	0.000000002816	DIRECT
SMAD/FHA domain	0.00000003067	DIRECT
SCP-like	0.0000001055	DIRECT
UBA-like	0.000000112	DIRECT
RCC1/BLIP-II	0.0000004607	DIRECT
Galactose oxidase, central domain	0.0000006457	DIRECT
Class I glutamine amidotransferase-like	0.000001365	DIRECT
beta-beta-alpha zinc fingers	0.000004502	DIRECT
Homeodomain-like	0.000005536	DIRECT
C2 domain (Calcium/lipid-binding domain, CaLB)	0.000008373	DIRECT
Cyclin-like	0.00002455	DIRECT
Cysteine proteinases	0.00004204	DIRECT
Ubiquitin-like	0.00011	DIRECT
Tropomyosin	0.0001114	DIRECT
TAF(II)230 TBP-binding fragment	0.0003953	DIRECT
vWA-like	0.0004119	DIRECT
CBS-domain pair	0.0009382	DIRECT
Formin homology 2 domain (FH2 domain)	0.001021	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Kelch motif	0.00172	INHERITED FROM: Transferring groups other than amino-acyl groups || methoxycarbonyltransferase
PFL-like glycyl radical enzymes	0.002802	INHERITED FROM: Transferring groups other than amino-acyl groups || Formate C-acetyltransferase
Acetyl-CoA synthetase-like	0.01878	INHERITED FROM: Transferring groups other than amino-acyl groups || Acyl-[acyl-carrier-protein]--phospholipid O-acyltransferase
EF-hand	0.06082	INHERITED FROM: 1-acylglycerophosphocholine O-acyltransferase || 1-acylglycerol-3-phosphate O-acyltransferase || 1-alkylglycerophosphocholine O-acetyltransferase || RING-type E3 ubiquitin transferase
Zinc beta-ribbon	0.07544	INHERITED FROM: Histone acetyltransferase
Prismane protein-like	0.07837	INHERITED FROM: CO-methylating acetyl-CoA synthase
DEATH domain	0.08255	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Second domain of FERM	0.1151	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Glutamine synthetase, N-terminal domain	0.2572	INHERITED FROM: Protein S-acyltransferase
PDZ domain-like	0.3139	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
SGNH hydrolase	0.3651	INHERITED FROM: Diglucosylglycerate octanoyltransferase
RNA-binding domain, RBD	0.4426	INHERITED FROM: RING-type E3 ubiquitin transferase
Cyclophilin-like	0.5355	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Tudor/PWWP/MBT	0.5409	INHERITED FROM: HECT-type E3 ubiquitin transferase
Dimeric alpha+beta barrel	0.7749	INHERITED FROM: Homocitrate synthase || Acyl groups converted into alkyl groups on transfer
PYP-like sensor domain (PAS domain)	0.8731	INHERITED FROM: Transferring groups other than amino-acyl groups || Histone acetyltransferase
Nucleic acid-binding proteins	1	INHERITED FROM: Lysyltransferase
Inosine monophosphate dehydrogenase (IMPDH)	1	INHERITED FROM: [Acyl-carrier-protein] S-acetyltransferase || Fatty-acyl-CoA synthase system || [Acyl-carrier-protein] S-malonyltransferase
NAD(P)-binding Rossmann-fold domains	1	INHERITED FROM: 10-deoxymethynolide syntase || [Acyl-carrier-protein] S-acetyltransferase || 6-deoxyerythronolide-B synthase || Fatty-acyl-CoA synthase system || Lovastatin nonaketide synthase || 6-methylsalicylic acid synthase || ATP citrate synthase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || Narbonolide synthase || Fatty-acid synthase system || 2-methylbutanoate polyketide synthase
TPR-like	1	INHERITED FROM: RING-type E3 ubiquitin transferase
Clavaminate synthase-like	1	INHERITED FROM: methoxycarbonyltransferase
Thiamin diphosphate-binding fold (THDP-binding)	1	INHERITED FROM: Dihydrolipoyllysine-residue succinyltransferase || Sulfoacetaldehyde acetyltransferase
Phosphoenolpyruvate/pyruvate domain	1	INHERITED FROM: Malate synthase
FMN-linked oxidoreductases	1	INHERITED FROM: [Acyl-carrier-protein] S-malonyltransferase
Fibronectin type III	1	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
GroES-like	1	INHERITED FROM: [Acyl-carrier-protein] S-acetyltransferase || [Acyl-carrier-protein] S-malonyltransferase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || Fatty-acid synthase system || 2-methylbutanoate polyketide synthase
Zn-dependent exopeptidases	1	INHERITED FROM: Glutaminyl-peptide cyclotransferase
Radical SAM enzymes	1	INHERITED FROM: Histone acetyltransferase
SH2 domain	1	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Galactose-binding domain-like	1	INHERITED FROM: HECT-type E3 ubiquitin transferase
Glutamine synthetase/guanido kinase	1	INHERITED FROM: Protein S-acyltransferase
L domain-like	1	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
PLP-dependent transferases	1	INHERITED FROM: 5-aminolevulinate synthase || 8-amino-7-oxononanoate synthase || Glycine C-acetyltransferase || Transferring groups other than amino-acyl groups || Serine C-palmitoyltransferase
DHS-like NAD/FAD-binding domain	1	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || Sulfoacetaldehyde acetyltransferase
tRNA-binding arm	1	INHERITED FROM: glycyltransferase
P-loop containing nucleoside triphosphate hydrolases	1	INHERITED FROM: Phosphate acetyltransferase || tRNA(Met) cytidine acetyltransferase
Succinyl-CoA synthetase domains	1	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || ATP citrate synthase
SH3-domain	1	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
"Winged helix" DNA-binding domain	1	INHERITED FROM: Histone acetyltransferase
Glutathione synthetase ATP-binding domain-like	1	INHERITED FROM: ATP citrate synthase
PUA domain-like	1	INHERITED FROM: RING-type E3 ubiquitin transferase
Thioesterase/thiol ester dehydrase-isomerase	1	INHERITED FROM: [Acyl-carrier-protein] S-acetyltransferase || Fatty-acyl-CoA synthase system || [Acyl-carrier-protein] S-malonyltransferase
BRCT domain	1	INHERITED FROM: RING-type E3 ubiquitin transferase
E set domains	1	INHERITED FROM: Aminoacyltransferases || Protein-glutamine gamma-glutamyltransferase
Carbamate kinase-like	1	INHERITED FROM: Amino-acid N-acetyltransferase
4'-phosphopantetheinyl transferase	1	INHERITED FROM: Fatty-acyl-CoA synthase system || Beta-ketoacyl-[acyl-carrier-protein] synthase I
S-adenosyl-L-methionine-dependent methyltransferases	1	INHERITED FROM: [Acyl-carrier-protein] S-acetyltransferase || Lovastatin nonaketide synthase || Fatty-acid synthase system || 2-methylbutanoate polyketide synthase || methoxycarbonyltransferase
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	1	INHERITED FROM: Aminoacyltransferases || Gamma-glutamyltransferase

Family domains annotated to this EC term (SDEC level: Moderately Informative)
Highlighted in gray are those with FDR_all>0.001

SCOP term	FDR (all)	Annotation (direct or inherited)
Phosphotransacetylase	0	DIRECT
HTS-like	0	DIRECT
Lrp/AsnC-like transcriptional regulator C-terminal domain	0	DIRECT
Probable ACP-binding domain of malonyl-CoA ACP transacylase	0	DIRECT
APC10-like	0	DIRECT
Zinc hairpin stack	0	DIRECT
Transglutaminase N-terminal domain	0	DIRECT
SWIB/MDM2 domain	0	DIRECT
NHL repeat	0	DIRECT
SIAH, seven in absentia homolog	0	DIRECT
N-terminal domain of cbl (N-cbl)	0	DIRECT
U-box	0	DIRECT
CCHHC domain	0	DIRECT
Armadillo repeat	0	DIRECT
YeaZ-like	0	DIRECT
Kix domain of CBP (creb binding protein)	0	DIRECT
Malate synthase G	0	DIRECT
BRCT domain	0	DIRECT
Chalcone synthase-like	0	DIRECT
B-box zinc-binding domain	0	DIRECT
Methicillin resistance protein FemA probable tRNA-binding arm	0	DIRECT
N-myristoyl transferase, NMT	0	DIRECT
ZZ domain	0	DIRECT
Arylamine N-acetyltransferase	0	DIRECT
Hypoxia-inducible factor Hif2a, C-terminal domain	0	DIRECT
Inhibitor of apoptosis (IAP) repeat	0	DIRECT
Nuclear receptor coactivator interlocking domain	0	DIRECT
RING finger domain, C3HC4	0	DIRECT
CAT-like	0	DIRECT
Glutaminyl-peptide cyclotransferase-like	0	DIRECT
WWE domain	0	DIRECT
Outer membrane enzyme PagP	0	DIRECT
GABA-aminotransferase-like	0	DIRECT
WW domain	0	DIRECT
CHY zinc finger	0	DIRECT
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
Mycobacterial antigens	0	DIRECT
UDP N-acetylglucosamine acyltransferase	0	DIRECT
Transglutaminase core	0	DIRECT
Mib/herc2 domain	0	DIRECT
Choline/Carnitine O-acyltransferase	0	DIRECT
Transcription factor IIB (TFIIB), core domain	0	DIRECT
2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain	0	DIRECT
Leucine zipper domain	0	DIRECT
Docking domain B of the erythromycin polyketide synthase (DEBS)	0	DIRECT
Phytochelatin synthase	0	DIRECT
Transglutaminase, two C-terminal domains	0	DIRECT
Autoinducer synthetase	0	DIRECT
Trimerization domain of TRAF	0	DIRECT
UBC-related	0	DIRECT
HMGL-like	0	DIRECT
Galactoside acetyltransferase-like	0	DIRECT
UDP-glucose pyrophosphorylase	0	DIRECT
USP8 interacting domain	0	DIRECT
Ran binding protein zinc finger-like	0	DIRECT
Hect, E3 ligase catalytic domain	0	DIRECT
FemXAB nonribosomal peptidyltransferases	0	DIRECT
Chromo barrel domain	0	DIRECT
ArgJ-like	0	DIRECT
N-acetyl transferase, NAT	0	DIRECT
DmpG/LeuA communication domain-like	0	DIRECT
Acetyl-CoA synthase	0	DIRECT
O-acetyltransferase	0	DIRECT
Ankyrin repeat	0	DIRECT
Transcriptional factor domain	0	DIRECT
Glycerol-3-phosphate (1)-acyltransferase	0	DIRECT
TAZ domain	0	DIRECT
Aminoglycoside 3-N-acetyltransferase-like	0	DIRECT
Serine acetyltransferase	0	DIRECT
Citrate synthase	0	DIRECT
Homeodomain	0	DIRECT
PAS domain of steroid receptor coactivator 1A, NCo-A1	0	DIRECT
LFTR-like	0	DIRECT
CPH domain	0	DIRECT
Variant RING domain	0	DIRECT
Thiolase-related	0	DIRECT
Tetrahydrodipicolinate-N-succinlytransferase, THDP-succinlytransferase, DapD	0	DIRECT
Acyl-carrier protein (ACP)	0	DIRECT
SPRY domain	0	DIRECT
PHD domain	0	DIRECT
PABC (PABP) domain	0	DIRECT
AstA-like	0	DIRECT
FabD-like	0	DIRECT
Biotinyl/lipoyl-carrier proteins and domains	0	DIRECT
HLH, helix-loop-helix DNA-binding domain	0	DIRECT
GlmU C-terminal domain-like	0	DIRECT
CCCH zinc finger	0	DIRECT
LplA-like	0	DIRECT
Formylmethanofuran:tetrahydromethanopterin formyltransferase	0	DIRECT
Gamma-glutamyltranspeptidase-like	0	DIRECT
Bromodomain	0	DIRECT
PlsX-like	0	DIRECT
MATH domain	7.344e-16	DIRECT
PFL-like	0.000000000000001461	DIRECT
WD40-repeat	0.0000000000006483	DIRECT
DRTGG domain	0.0000000000008931	DIRECT
Classic zinc finger, C2H2	0.00000000002127	DIRECT
SAP domain	0.00000000002852	DIRECT
Pentapeptide repeats	0.0000000001571	DIRECT
SRA domain-like	0.000000001225	DIRECT
Filamin repeat (rod domain)	0.000000001832	DIRECT
Ubiquitin-related	0.000000002586	DIRECT
Thioesterase domain of polypeptide, polyketide and fatty acid synthases	0.00000000325	DIRECT
Leucine rich effector protein YopM	0.000000007908	DIRECT
FHA domain	0.000000008586	DIRECT
Sterol carrier protein, SCP	0.000000045	DIRECT
NRPS condensation domain (amide synthase)	0.0000007012	DIRECT
CoA-binding domain	0.000003052	DIRECT
FYVE, a phosphatidylinositol-3-phosphate binding domain	0.000004043	DIRECT
Regulator of chromosome condensation RCC1	0.000004418	DIRECT
Tropomyosin	0.000004794	DIRECT
Hypoxia-inducible factor HIF ihhibitor (FIH1)	0.000008191	DIRECT
EF-hand modules in multidomain proteins	0.00001219	DIRECT
PA domain	0.00003003	DIRECT
Leucine carboxy methyltransferase Ppm1	0.00003123	DIRECT
MaoC-like	0.00003678	DIRECT
UBA domain	0.0001184	DIRECT
PDZ domain	0.0001184	DIRECT
CBS-domain pair	0.0002532	DIRECT
TAF(II)230 TBP-binding fragment	0.0002943	DIRECT
First domain of FERM	0.003432	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Third domain of FERM	0.003432	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Acetyl-CoA synthetase-like	0.003547	INHERITED FROM: Transferring groups other than amino-acyl groups || Acyl-[acyl-carrier-protein]--phospholipid O-acyltransferase
Caspase recruitment domain, CARD	0.03331	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
RWD domain	0.04407	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Branched-chain alpha-keto acid dehydrogenase Pyr module	0.04693	INHERITED FROM: Dihydrolipoyllysine-residue succinyltransferase
Branched-chain alpha-keto acid dehydrogenase PP module	0.05027	INHERITED FROM: Dihydrolipoyllysine-residue succinyltransferase
Second domain of FERM	0.07822	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Glutamine synthetase, N-terminal domain	0.1519	INHERITED FROM: Protein S-acyltransferase
Glutamine synthetase catalytic domain	0.1848	INHERITED FROM: Protein S-acyltransferase
PLC-like (P variant)	0.2604	INHERITED FROM: Aminoacyltransferases || HECT-type E3 ubiquitin transferase
Tetratricopeptide repeat (TPR)	0.2684	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Cyclophilin (peptidylprolyl isomerase)	0.3074	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
HpcH/HpaI aldolase	0.4171	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || Malate synthase
Chromo domain	0.4497	INHERITED FROM: Histone acetyltransferase
Pyruvate oxidase and decarboxylase, middle domain	0.4726	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || Sulfoacetaldehyde acetyltransferase
Serine carboxypeptidase-like	0.8218	INHERITED FROM: Sinapoylglucose--sinapoylglucose O-sinapoyltransferase
Alcohol dehydrogenase-like, C-terminal domain	0.864	INHERITED FROM: [Acyl-carrier-protein] S-acetyltransferase || [Acyl-carrier-protein] S-malonyltransferase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || Fatty-acid synthase system || 2-methylbutanoate polyketide synthase
Alcohol dehydrogenase-like, N-terminal domain	0.9257	INHERITED FROM: [Acyl-carrier-protein] S-acetyltransferase || [Acyl-carrier-protein] S-malonyltransferase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || Fatty-acid synthase system || 2-methylbutanoate polyketide synthase
Fibronectin type III	0.9467	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
SH3-domain	0.9635	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Tyrosine-dependent oxidoreductases	0.9798	INHERITED FROM: 10-deoxymethynolide syntase || [Acyl-carrier-protein] S-acetyltransferase || 6-deoxyerythronolide-B synthase || Lovastatin nonaketide synthase || 6-methylsalicylic acid synthase || [Acyl-carrier-protein] S-malonyltransferase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || Narbonolide synthase || Fatty-acid synthase system || 2-methylbutanoate polyketide synthase
Pyruvate oxidase and decarboxylase PP module	1	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || Sulfoacetaldehyde acetyltransferase
Succinyl-CoA synthetase, beta-chain, N-terminal domain	1	INHERITED FROM: ATP citrate synthase
N-acetyl-l-glutamate kinase	1	INHERITED FROM: Transferring groups other than amino-acyl groups || Amino-acid N-acetyltransferase
SH2 domain	1	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain	1	INHERITED FROM: Lysyltransferase
Holo-(acyl carrier protein) synthase ACPS	1	INHERITED FROM: Fatty-acyl-CoA synthase system || Beta-ketoacyl-[acyl-carrier-protein] synthase I
Anticodon-binding domain	1	INHERITED FROM: Lysyltransferase
Crotonase-like	1	INHERITED FROM: Histone acetyltransferase
Succinyl-CoA synthetase domains	1	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || ATP citrate synthase
Pyruvate oxidase and decarboxylase Pyr module	1	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || Sulfoacetaldehyde acetyltransferase
Calmodulin-like	1	INHERITED FROM: 1-acylglycerophosphocholine O-acyltransferase || 1-acylglycerol-3-phosphate O-acyltransferase || 1-alkylglycerophosphocholine O-acetyltransferase
Class I aldolase	1	INHERITED FROM: 3-hydroxy-5-phosphonooxypentane-2,4-dione thiolase

Trees by TreeVector

A presence/absence matrix is generated using protein domain architecture data for all genomes in SUPERFAMILY. The PAUP 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 EC term (SPEC level: Moderately Informative)
Highlighted in gray are those with FDR>0.001

Supra-domain (Single)	FDR (all)	Annotation (direct or inherited)
CCCH zinc finger	0	DIRECT
RING/U-box	0	DIRECT
Glycerol-3-phosphate (1)-acyltransferase	0	DIRECT
ARM repeat	0	DIRECT
alpha/beta-Hydrolases	0	DIRECT
NRDP1 C-terminal domain-like	0	DIRECT
post-HMGL domain-like	0	DIRECT
PABC (PABP) domain	0	DIRECT
UBC-like	0	DIRECT
DmpA/ArgJ-like	0	DIRECT
Nuclear receptor coactivator interlocking domain	0	DIRECT
FYVE/PHD zinc finger	0	DIRECT
2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain	0	DIRECT
TRAF domain-like	0	DIRECT
Isocitrate/Isopropylmalate dehydrogenase-like	0	DIRECT
Nucleotide-diphospho-sugar transferases	0	DIRECT
HprK N-terminal domain-like	0	DIRECT
Aldolase	0	DIRECT
Single hybrid motif	0	DIRECT
SWIB/MDM2 domain	0	DIRECT
Inhibitor of apoptosis (IAP) repeat	0	DIRECT
CCHHC domain	0	DIRECT
Ankyrin repeat	0	DIRECT
HLH, helix-loop-helix DNA-binding domain	0	DIRECT
Probable ACP-binding domain of malonyl-CoA ACP transacylase	0	DIRECT
TAZ domain	0	DIRECT
CHY zinc finger-like	0	DIRECT
Malate synthase G	0	DIRECT
Carbon-nitrogen hydrolase	0	DIRECT
TTHA0583/YokD-like	0	DIRECT
Citrate synthase	0	DIRECT
Trimeric LpxA-like enzymes	0	DIRECT
Transglutaminase, two C-terminal domains	0	DIRECT
Leucine zipper domain	0	DIRECT
B-box zinc-binding domain	0	DIRECT
Concanavalin A-like lectins/glucanases	0	DIRECT
Formylmethanofuran:tetrahydromethanopterin formyltransferase	0	DIRECT
Zinc hairpin stack	0	DIRECT
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
Thiolase-like	0	DIRECT
Mib/herc2 domain-like	0	DIRECT
ClpS-like	0	DIRECT
FabD/lysophospholipase-like	0	DIRECT
PA domain	0	DIRECT
Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
Trimerization domain of TRAF	0	DIRECT
OMPA-like	0	DIRECT
Hect, E3 ligase catalytic domain	0	DIRECT
Kix domain of CBP (creb binding protein)	0	DIRECT
ACP-like	0	DIRECT
WW domain	0	DIRECT
NHL repeat	0	DIRECT
CoA-dependent acyltransferases	0	DIRECT
WWE domain	0	DIRECT
Bromodomain	0	DIRECT
Actin-like ATPase domain	0	DIRECT
N-terminal domain of cbl (N-cbl)	0	DIRECT
Docking domain B of the erythromycin polyketide synthase (DEBS)	0	DIRECT
Ran binding protein zinc finger-like	3.539e-16	DIRECT
Chromo domain-like	0.000000000000006971	DIRECT
WD40 repeat-like	0.00000000000002829	DIRECT
Class II aaRS and biotin synthetases	0.0000000000003858	DIRECT
SAP domain	0.0000000000397	DIRECT
Pentapeptide repeat-like	0.000000002113	DIRECT
SMAD/FHA domain	0.00000002331	DIRECT
SCP-like	0.00000008086	DIRECT
UBA-like	0.00000008577	DIRECT
RCC1/BLIP-II	0.000000357	DIRECT
Galactose oxidase, central domain	0.0000005023	DIRECT
Class I glutamine amidotransferase-like	0.000001067	DIRECT
beta-beta-alpha zinc fingers	0.000003541	DIRECT
Homeodomain-like	0.00000436	DIRECT
C2 domain (Calcium/lipid-binding domain, CaLB)	0.000006621	DIRECT
Cyclin-like	0.00001958	DIRECT
Cysteine proteinases	0.00003367	DIRECT
Ubiquitin-like	0.00008901	DIRECT
Tropomyosin	0.0000902	DIRECT
TAF(II)230 TBP-binding fragment	0.0003229	DIRECT
vWA-like	0.0003366	DIRECT
CBS-domain pair	0.0007739	DIRECT
Formin homology 2 domain (FH2 domain)	0.0008431	DIRECT
Kelch motif	0.00143	INHERITED FROM: Transferring groups other than amino-acyl groups || methoxycarbonyltransferase
PFL-like glycyl radical enzymes	0.002342	INHERITED FROM: Formate C-acetyltransferase || Transferring groups other than amino-acyl groups
Acetyl-CoA synthetase-like	0.01604	INHERITED FROM: Acyl-[acyl-carrier-protein]--phospholipid O-acyltransferase || Transferring groups other than amino-acyl groups
EF-hand	0.05278	INHERITED FROM: RING-type E3 ubiquitin transferase || 1-acylglycerophosphocholine O-acyltransferase || 1-alkylglycerophosphocholine O-acetyltransferase || 1-acylglycerol-3-phosphate O-acyltransferase
Zinc beta-ribbon	0.06563	INHERITED FROM: Histone acetyltransferase
Prismane protein-like	0.06822	INHERITED FROM: CO-methylating acetyl-CoA synthase
DEATH domain	0.07192	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
Second domain of FERM	0.1008	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
Glutamine synthetase, N-terminal domain	0.2301	INHERITED FROM: Protein S-acyltransferase
PDZ domain-like	0.2837	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
SGNH hydrolase	0.3305	INHERITED FROM: Diglucosylglycerate octanoyltransferase
RNA-binding domain, RBD	0.4026	INHERITED FROM: RING-type E3 ubiquitin transferase
Cyclophilin-like	0.4902	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
Tudor/PWWP/MBT	0.4954	INHERITED FROM: HECT-type E3 ubiquitin transferase
Dimeric alpha+beta barrel	0.7136	INHERITED FROM: Homocitrate synthase || Acyl groups converted into alkyl groups on transfer
PYP-like sensor domain (PAS domain)	0.8061	INHERITED FROM: Transferring groups other than amino-acyl groups || Histone acetyltransferase
Fibronectin type III	0.955	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
GroES-like	0.9558	INHERITED FROM: Fatty-acid synthase system || 2-methylbutanoate polyketide synthase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || [Acyl-carrier-protein] S-acetyltransferase || [Acyl-carrier-protein] S-malonyltransferase
PLP-dependent transferases	0.956	INHERITED FROM: 5-aminolevulinate synthase || Transferring groups other than amino-acyl groups || Glycine C-acetyltransferase || Serine C-palmitoyltransferase || 8-amino-7-oxononanoate synthase
E set domains	0.9624	INHERITED FROM: Protein-glutamine gamma-glutamyltransferase || Aminoacyltransferases
SH3-domain	0.9697	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
TPR-like	0.9777	INHERITED FROM: RING-type E3 ubiquitin transferase
Succinyl-CoA synthetase domains	1	INHERITED FROM: ATP citrate synthase || Acyl groups converted into alkyl groups on transfer
Inosine monophosphate dehydrogenase (IMPDH)	1	INHERITED FROM: [Acyl-carrier-protein] S-acetyltransferase || [Acyl-carrier-protein] S-malonyltransferase || Fatty-acyl-CoA synthase system
L domain-like	1	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
DHS-like NAD/FAD-binding domain	1	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || Sulfoacetaldehyde acetyltransferase
4'-phosphopantetheinyl transferase	1	INHERITED FROM: Beta-ketoacyl-[acyl-carrier-protein] synthase I || Fatty-acyl-CoA synthase system
PUA domain-like	1	INHERITED FROM: RING-type E3 ubiquitin transferase
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	1	INHERITED FROM: Aminoacyltransferases || Gamma-glutamyltransferase
"Winged helix" DNA-binding domain	1	INHERITED FROM: Histone acetyltransferase
Glutathione synthetase ATP-binding domain-like	1	INHERITED FROM: ATP citrate synthase
Zn-dependent exopeptidases	1	INHERITED FROM: Glutaminyl-peptide cyclotransferase
Nucleic acid-binding proteins	1	INHERITED FROM: Lysyltransferase
Phosphoenolpyruvate/pyruvate domain	1	INHERITED FROM: Malate synthase
P-loop containing nucleoside triphosphate hydrolases	1	INHERITED FROM: tRNA(Met) cytidine acetyltransferase || Phosphate acetyltransferase
Glutamine synthetase/guanido kinase	1	INHERITED FROM: Protein S-acyltransferase
Galactose-binding domain-like	1	INHERITED FROM: HECT-type E3 ubiquitin transferase
S-adenosyl-L-methionine-dependent methyltransferases	1	INHERITED FROM: Fatty-acid synthase system || Lovastatin nonaketide synthase || methoxycarbonyltransferase || 2-methylbutanoate polyketide synthase || [Acyl-carrier-protein] S-acetyltransferase
NAD(P)-binding Rossmann-fold domains	1	INHERITED FROM: 6-methylsalicylic acid synthase || Narbonolide synthase || Fatty-acid synthase system || Lovastatin nonaketide synthase || 6-deoxyerythronolide-B synthase || ATP citrate synthase || 2-methylbutanoate polyketide synthase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || [Acyl-carrier-protein] S-acetyltransferase || 10-deoxymethynolide syntase || Fatty-acyl-CoA synthase system
SH2 domain	1	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
FMN-linked oxidoreductases	1	INHERITED FROM: [Acyl-carrier-protein] S-malonyltransferase
Thiamin diphosphate-binding fold (THDP-binding)	1	INHERITED FROM: Sulfoacetaldehyde acetyltransferase || Dihydrolipoyllysine-residue succinyltransferase
Carbamate kinase-like	1	INHERITED FROM: Amino-acid N-acetyltransferase
BRCT domain	1	INHERITED FROM: RING-type E3 ubiquitin transferase
Thioesterase/thiol ester dehydrase-isomerase	1	INHERITED FROM: [Acyl-carrier-protein] S-acetyltransferase || [Acyl-carrier-protein] S-malonyltransferase || Fatty-acyl-CoA synthase system
Radical SAM enzymes	1	INHERITED FROM: Histone acetyltransferase
Clavaminate synthase-like	1	INHERITED FROM: methoxycarbonyltransferase
tRNA-binding arm	1	INHERITED FROM: glycyltransferase

Supra-domains annotated to this EC term (SPEC level: Moderately 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)
53067,53067 53067 - Actin-like ATPase domain 53067 - Actin-like ATPase domain	0	DIRECT
54495,46934 54495 - UBC-like 46934 - UBA-like	0	DIRECT
69593,56801 69593 - Glycerol-3-phosphate (1)-acyltransferase 56801 - Acetyl-CoA synthetase-like	0	DIRECT
51569,54909 51569 - Aldolase 54909 - Dimeric alpha+beta barrel	0	DIRECT
57850,101898 57850 - RING/U-box 101898 - NHL repeat	0	DIRECT
47592,90209 47592 - SWIB/MDM2 domain 90209 - Ran binding protein zinc finger-like	0	DIRECT
49599,57953 49599 - TRAF domain-like 57953 - Trimerization domain of TRAF	0	DIRECT
51045,51045 51045 - WW domain 51045 - WW domain	0	DIRECT
54236,90209 54236 - Ubiquitin-like 90209 - Ran binding protein zinc finger-like	0	DIRECT
49562,51045 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 51045 - WW domain	0	DIRECT
56112,57850 56112 - Protein kinase-like (PK-like) 57850 - RING/U-box	0	DIRECT
57850,159034 57850 - RING/U-box 159034 - Mib/herc2 domain-like	0	DIRECT
49599,160088 49599 - TRAF domain-like 160088 - NRDP1 C-terminal domain-like	0	DIRECT
63570,56204 63570 - PABC (PABP) domain 56204 - Hect, E3 ligase catalytic domain	0	DIRECT
53067,56112 53067 - Actin-like ATPase domain 56112 - Protein kinase-like (PK-like)	0	DIRECT
47005,52777 47005 - Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex 52777 - CoA-dependent acyltransferases	0	DIRECT
102114,55729 102114 - Radical SAM enzymes 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
52025,57850 52025 - PA domain 57850 - RING/U-box	0	DIRECT
57924,57924 57924 - Inhibitor of apoptosis (IAP) repeat 57924 - Inhibitor of apoptosis (IAP) repeat	0	DIRECT
53633,55729 53633 - Carbamate kinase-like 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
47668,47473 47668 - N-terminal domain of cbl (N-cbl) 47473 - EF-hand	0	DIRECT
51230,47005 51230 - Single hybrid motif 47005 - Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
54637,52151 54637 - Thioesterase/thiol ester dehydrase-isomerase 52151 - FabD/lysophospholipase-like	0	DIRECT
53448,51161 53448 - Nucleotide-diphospho-sugar transferases 51161 - Trimeric LpxA-like enzymes	0	DIRECT
57850,49599 57850 - RING/U-box 49599 - TRAF domain-like	0	DIRECT
53474,54631 53474 - alpha/beta-Hydrolases 54631 - CBS-domain pair	0	DIRECT
81296,54001 81296 - E set domains 54001 - Cysteine proteinases	0	DIRECT
57850,57667 57850 - RING/U-box 57667 - beta-beta-alpha zinc fingers	0	DIRECT
90229,57850 90229 - CCCH zinc finger 57850 - RING/U-box	0	DIRECT
90209,57850 90209 - Ran binding protein zinc finger-like 57850 - RING/U-box	0	DIRECT
51045,56204 51045 - WW domain 56204 - Hect, E3 ligase catalytic domain	0	DIRECT
117281,51197 117281 - Kelch motif 51197 - Clavaminate synthase-like	0	DIRECT
57850,57850 57850 - RING/U-box 57850 - RING/U-box	0	DIRECT
54001,49309 54001 - Cysteine proteinases 49309 - Transglutaminase, two C-terminal domains	0	DIRECT
53901,55718 53901 - Thiolase-like 55718 - SCP-like	0	DIRECT
54495,57850 54495 - UBC-like 57850 - RING/U-box	0	DIRECT
53335,50965 53335 - S-adenosyl-L-methionine-dependent methyltransferases 50965 - Galactose oxidase, central domain	0	DIRECT
57850,117839 57850 - RING/U-box 117839 - WWE domain	0	DIRECT
52777,52777 52777 - CoA-dependent acyltransferases 52777 - CoA-dependent acyltransferases	0	DIRECT
90229,90229 90229 - CCCH zinc finger 90229 - CCCH zinc finger	0	DIRECT
51230,52777 51230 - Single hybrid motif 52777 - CoA-dependent acyltransferases	0	DIRECT
81296,101898 81296 - E set domains 101898 - NHL repeat	0	DIRECT
57850,57933 57850 - RING/U-box 57933 - TAZ domain	0	DIRECT
50965,51197 50965 - Galactose oxidase, central domain 51197 - Clavaminate synthase-like	0	DIRECT
55729,46589 55729 - Acyl-CoA N-acyltransferases (Nat) 46589 - tRNA-binding arm	0	DIRECT
49599,49599 49599 - TRAF domain-like 49599 - TRAF domain-like	0	DIRECT
69593,47473 69593 - Glycerol-3-phosphate (1)-acyltransferase 47473 - EF-hand	0	DIRECT
49785,159034 49785 - Galactose-binding domain-like 159034 - Mib/herc2 domain-like	0	DIRECT
54160,55729 54160 - Chromo domain-like 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
52210,51735 52210 - Succinyl-CoA synthetase domains 51735 - NAD(P)-binding Rossmann-fold domains	0	DIRECT
46785,57903 46785 - "Winged helix" DNA-binding domain 57903 - FYVE/PHD zinc finger	0	DIRECT
57850,57845 57850 - RING/U-box 57845 - B-box zinc-binding domain	0	DIRECT
75138,53659 75138 - HprK N-terminal domain-like 53659 - Isocitrate/Isopropylmalate dehydrogenase-like	0	DIRECT
51230,51230 51230 - Single hybrid motif 51230 - Single hybrid motif	0	DIRECT
52540,75138 52540 - P-loop containing nucleoside triphosphate hydrolases 75138 - HprK N-terminal domain-like	0	DIRECT
68906,57850 68906 - SAP domain 57850 - RING/U-box	0	DIRECT
159034,57850 159034 - Mib/herc2 domain-like 57850 - RING/U-box	0	DIRECT
55112,55112 55112 - Formylmethanofuran:tetrahydromethanopterin formyltransferase 55112 - Formylmethanofuran:tetrahydromethanopterin formyltransferase	0	DIRECT
48371,117839 48371 - ARM repeat 117839 - WWE domain	0	DIRECT
55729,47370 55729 - Acyl-CoA N-acyltransferases (Nat) 47370 - Bromodomain	0	DIRECT
49599,50156 49599 - TRAF domain-like 50156 - PDZ domain-like	0	DIRECT
57783,47954 57783 - Zinc beta-ribbon 47954 - Cyclin-like	0	DIRECT
48452,57850 48452 - TPR-like 57850 - RING/U-box	0	DIRECT
48403,57850 48403 - Ankyrin repeat 57850 - RING/U-box	0	DIRECT
48403,52113 48403 - Ankyrin repeat 52113 - BRCT domain	0	DIRECT
49879,57850 49879 - SMAD/FHA domain 57850 - RING/U-box	0	DIRECT
53901,53901 53901 - Thiolase-like 53901 - Thiolase-like	0	DIRECT
57850,52540 57850 - RING/U-box 52540 - P-loop containing nucleoside triphosphate hydrolases	0	DIRECT
47459,55785 47459 - HLH, helix-loop-helix DNA-binding domain 55785 - PYP-like sensor domain (PAS domain)	0	DIRECT
50044,50044 50044 - SH3-domain 50044 - SH3-domain	0	DIRECT
89000,110921 89000 - post-HMGL domain-like 110921 - 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain	0	DIRECT
52151,55048 52151 - FabD/lysophospholipase-like 55048 - Probable ACP-binding domain of malonyl-CoA ACP transacylase	0	DIRECT
57850,50978 57850 - RING/U-box 50978 - WD40 repeat-like	0	DIRECT
57903,57850 57903 - FYVE/PHD zinc finger 57850 - RING/U-box	0	DIRECT
53300,57850 53300 - vWA-like 57850 - RING/U-box	0	DIRECT
47473,55550 47473 - EF-hand 55550 - SH2 domain	0	DIRECT
57850,48371 57850 - RING/U-box 48371 - ARM repeat	0	DIRECT
52540,55729 52540 - P-loop containing nucleoside triphosphate hydrolases 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
51735,48256 51735 - NAD(P)-binding Rossmann-fold domains 48256 - Citrate synthase	0	DIRECT
161245,57850 161245 - Zinc hairpin stack 57850 - RING/U-box	0	DIRECT
161219,161245 161219 - CHY zinc finger-like 161245 - Zinc hairpin stack	0	DIRECT
55550,57850 55550 - SH2 domain 57850 - RING/U-box	0	DIRECT
51735,51735 51735 - NAD(P)-binding Rossmann-fold domains 51735 - NAD(P)-binding Rossmann-fold domains	0	DIRECT
57953,49599 57953 - Trimerization domain of TRAF 49599 - TRAF domain-like	0	DIRECT
49309,49309 49309 - Transglutaminase, two C-terminal domains 49309 - Transglutaminase, two C-terminal domains	0	DIRECT
47954,47954 47954 - Cyclin-like 47954 - Cyclin-like	0	DIRECT
52151,51412 52151 - FabD/lysophospholipase-like 51412 - Inosine monophosphate dehydrogenase (IMPDH)	0	DIRECT
51569,89000 51569 - Aldolase 89000 - post-HMGL domain-like	0	DIRECT
46589,55729 46589 - tRNA-binding arm 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
51735,47336 51735 - NAD(P)-binding Rossmann-fold domains 47336 - ACP-like	0	DIRECT
55729,55729 55729 - Acyl-CoA N-acyltransferases (Nat) 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
117839,117839 117839 - WWE domain 117839 - WWE domain	0	DIRECT
49785,50985 49785 - Galactose-binding domain-like 50985 - RCC1/BLIP-II	0	DIRECT
49265,49899 49265 - Fibronectin type III 49899 - Concanavalin A-like lectins/glucanases	0	DIRECT
47336,53474 47336 - ACP-like 53474 - alpha/beta-Hydrolases	0.00000000000009361	DIRECT
52113,52113 52113 - BRCT domain 52113 - BRCT domain	0.0000000000001075	DIRECT
49899,49899 49899 - Concanavalin A-like lectins/glucanases 49899 - Concanavalin A-like lectins/glucanases	0.000000001573	DIRECT
53335,51735 53335 - S-adenosyl-L-methionine-dependent methyltransferases 51735 - NAD(P)-binding Rossmann-fold domains	0.000000332	DIRECT
57903,47370 57903 - FYVE/PHD zinc finger 47370 - Bromodomain	0.00001958	DIRECT
48371,48403 48371 - ARM repeat 48403 - Ankyrin repeat	0.00004219	DIRECT
47336,52777 47336 - ACP-like 52777 - CoA-dependent acyltransferases	0.0001154	DIRECT
47370,47370 47370 - Bromodomain 47370 - Bromodomain	0.0003229	DIRECT
54236,47031 54236 - Ubiquitin-like 47031 - Second domain of FERM	0.003885	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
57667,57667 57667 - beta-beta-alpha zinc fingers 57667 - beta-beta-alpha zinc fingers	0.01749	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
47031,50729 47031 - Second domain of FERM 50729 - PH domain-like	0.03043	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
55785,55785 55785 - PYP-like sensor domain (PAS domain) 55785 - PYP-like sensor domain (PAS domain)	0.05464	INHERITED FROM: Transferring groups other than amino-acyl groups || Histone acetyltransferase
57903,57903 57903 - FYVE/PHD zinc finger 57903 - FYVE/PHD zinc finger	0.08283	INHERITED FROM: Transferring groups other than amino-acyl groups || Histone acetyltransferase
48371,48371 48371 - ARM repeat 48371 - ARM repeat	0.1008	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
51735,50129 51735 - NAD(P)-binding Rossmann-fold domains 50129 - GroES-like	0.1893	INHERITED FROM: Beta-ketoacyl-[acyl-carrier-protein] synthase I
54368,55931 54368 - Glutamine synthetase, N-terminal domain 55931 - Glutamine synthetase/guanido kinase	0.2301	INHERITED FROM: Protein S-acyltransferase
48452,48452 48452 - TPR-like 48452 - TPR-like	0.4321	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
50129,51735 50129 - GroES-like 51735 - NAD(P)-binding Rossmann-fold domains	0.9507	INHERITED FROM: Fatty-acid synthase system || 2-methylbutanoate polyketide synthase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || [Acyl-carrier-protein] S-acetyltransferase || [Acyl-carrier-protein] S-malonyltransferase
52518,52467 52518 - Thiamin diphosphate-binding fold (THDP-binding) 52467 - DHS-like NAD/FAD-binding domain	1	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || Sulfoacetaldehyde acetyltransferase
50249,55681 50249 - Nucleic acid-binding proteins 55681 - Class II aaRS and biotin synthetases	1	INHERITED FROM: Lysyltransferase
52518,52518 52518 - Thiamin diphosphate-binding fold (THDP-binding) 52518 - Thiamin diphosphate-binding fold (THDP-binding)	1	INHERITED FROM: Dihydrolipoyllysine-residue succinyltransferase
56059,52210 56059 - Glutathione synthetase ATP-binding domain-like 52210 - Succinyl-CoA synthetase domains	1	INHERITED FROM: ATP citrate synthase || Acyl groups converted into alkyl groups on transfer
52467,52518 52467 - DHS-like NAD/FAD-binding domain 52518 - Thiamin diphosphate-binding fold (THDP-binding)	1	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || Sulfoacetaldehyde acetyltransferase