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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)
HLH, helix-loop-helix DNA-binding domain	0	DIRECT
DmpA/ArgJ-like	0	DIRECT
CCCH zinc finger	0	DIRECT
PA domain	0	DIRECT
Glycerol-3-phosphate (1)-acyltransferase	0	DIRECT
NRDP1 C-terminal domain-like	0	DIRECT
PABC (PABP) domain	0	DIRECT
Probable ACP-binding domain of malonyl-CoA ACP transacylase	0	DIRECT
N-terminal domain of cbl (N-cbl)	0	DIRECT
UBC-like	0	DIRECT
Trimeric LpxA-like enzymes	0	DIRECT
CHY zinc finger-like	0	DIRECT
Leucine zipper domain	0	DIRECT
WW domain	0	DIRECT
TRAF domain-like	0	DIRECT
Trimerization domain of TRAF	0	DIRECT
TAZ domain	0	DIRECT
Actin-like ATPase domain	0	DIRECT
Concanavalin A-like lectins/glucanases	0	DIRECT
Isocitrate/Isopropylmalate dehydrogenase-like	0	DIRECT
post-HMGL domain-like	0	DIRECT
HprK N-terminal domain-like	0	DIRECT
Zinc hairpin stack	0	DIRECT
CoA-dependent acyltransferases	0	DIRECT
Hect, E3 ligase catalytic domain	0	DIRECT
SWIB/MDM2 domain	0	DIRECT
ACP-like	0	DIRECT
Transglutaminase, two C-terminal domains	0	DIRECT
ClpS-like	0	DIRECT
Bromodomain	0	DIRECT
2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain	0	DIRECT
Mib/herc2 domain-like	0	DIRECT
Aldolase	0	DIRECT
Formylmethanofuran:tetrahydromethanopterin formyltransferase	0	DIRECT
RING/U-box	0	DIRECT
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
FabD/lysophospholipase-like	0	DIRECT
Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
Thiolase-like	0	DIRECT
Single hybrid motif	0	DIRECT
Nucleotide-diphospho-sugar transferases	0	DIRECT
NHL repeat	0	DIRECT
CCHHC domain	0	DIRECT
Nuclear receptor coactivator interlocking domain	0	DIRECT
FYVE/PHD zinc finger	0	DIRECT
Citrate synthase	0	DIRECT
Malate synthase G	0	DIRECT
alpha/beta-Hydrolases	0	DIRECT
Inhibitor of apoptosis (IAP) repeat	0	DIRECT
WWE domain	0	DIRECT
Ankyrin repeat	0	DIRECT
ARM repeat	0	DIRECT
TTHA0583/YokD-like	0	DIRECT
Kix domain of CBP (creb binding protein)	0	DIRECT
OMPA-like	0	DIRECT
Docking domain B of the erythromycin polyketide synthase (DEBS)	0	DIRECT
B-box zinc-binding domain	0	DIRECT
Ran binding protein zinc finger-like	5.058e-16	DIRECT
Chromo domain-like	0.000000000000006928	DIRECT
WD40 repeat-like	0.00000000000002853	DIRECT
Class II aaRS and biotin synthetases	0.00000000000005943	DIRECT
SAP domain	0.0000000003099	DIRECT
Pentapeptide repeat-like	0.000000002456	DIRECT
SMAD/FHA domain	0.00000001394	DIRECT
UBA-like	0.00000009123	DIRECT
SCP-like	0.00000009459	DIRECT
RCC1/BLIP-II	0.0000003917	DIRECT
Class I glutamine amidotransferase-like	0.0000005077	DIRECT
beta-beta-alpha zinc fingers	0.0000005354	DIRECT
Galactose oxidase, central domain	0.0000005794	DIRECT
C2 domain (Calcium/lipid-binding domain, CaLB)	0.000005249	DIRECT
Cyclin-like	0.00002254	DIRECT
Cysteine proteinases	0.00002383	DIRECT
Ubiquitin-like	0.00009008	DIRECT
Tropomyosin	0.0001045	DIRECT
TAF(II)230 TBP-binding fragment	0.0003756	DIRECT
vWA-like	0.0004107	DIRECT
CBS-domain pair	0.0008151	DIRECT
Formin homology 2 domain (FH2 domain)	0.0009477	DIRECT
Kelch motif	0.001553	INHERITED FROM: Transferring groups other than amino-acyl groups || methoxycarbonyltransferase
Acetyl-CoA synthetase-like	0.002405	INHERITED FROM: Transferring groups other than amino-acyl groups || Acyl-[acyl-carrier-protein]--phospholipid O-acyltransferase
PFL-like glycyl radical enzymes	0.002426	INHERITED FROM: Transferring groups other than amino-acyl groups || Formate C-acetyltransferase
Homeodomain-like	0.01406	INHERITED FROM: Sphingosine N-acyltransferase
EF-hand	0.05391	INHERITED FROM: 1-alkylglycerophosphocholine O-acetyltransferase || RING-type E3 ubiquitin transferase || 1-acylglycerophosphocholine O-acyltransferase || 1-acylglycerol-3-phosphate O-acyltransferase
Prismane protein-like	0.07114	INHERITED FROM: CO-methylating acetyl-CoA synthase
Zinc beta-ribbon	0.07148	INHERITED FROM: Histone acetyltransferase
DEATH domain	0.07862	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Second domain of FERM	0.1099	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Glutamine synthetase, N-terminal domain	0.2425	INHERITED FROM: Protein S-acyltransferase
PDZ domain-like	0.3005	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
SGNH hydrolase	0.3513	INHERITED FROM: Diglucosylglycerate octanoyltransferase
Cyclophilin-like	0.5104	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Tudor/PWWP/MBT	0.5311	INHERITED FROM: HECT-type E3 ubiquitin transferase
Dimeric alpha+beta barrel	0.761	INHERITED FROM: Homocitrate synthase || Acyl groups converted into alkyl groups on transfer
RNA-binding domain, RBD	0.7788	INHERITED FROM: RING-type E3 ubiquitin transferase
PYP-like sensor domain (PAS domain)	0.8444	INHERITED FROM: Transferring groups other than amino-acyl groups || Histone acetyltransferase
TPR-like	0.9208	INHERITED FROM: RING-type E3 ubiquitin transferase
E set domains	0.994	INHERITED FROM: Aminoacyltransferases || Protein-glutamine gamma-glutamyltransferase
PLP-dependent transferases	0.9999	INHERITED FROM: Transferring groups other than amino-acyl groups || Glycine C-acetyltransferase || 5-aminolevulinate synthase || 8-amino-7-oxononanoate synthase || Serine C-palmitoyltransferase
Phosphoenolpyruvate/pyruvate domain	1	INHERITED FROM: Malate synthase
Thioesterase/thiol ester dehydrase-isomerase	1	INHERITED FROM: Fatty-acyl-CoA synthase || [Acyl-carrier-protein] S-malonyltransferase || [Acyl-carrier-protein] S-acetyltransferase
Thiamin diphosphate-binding fold (THDP-binding)	1	INHERITED FROM: Dihydrolipoyllysine-residue succinyltransferase || Sulfoacetaldehyde acetyltransferase
L domain-like	1	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Nucleic acid-binding proteins	1	INHERITED FROM: Lysyltransferase
Succinyl-CoA synthetase domains	1	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || ATP citrate synthase
PUA domain-like	1	INHERITED FROM: RING-type E3 ubiquitin transferase
Galactose-binding domain-like	1	INHERITED FROM: HECT-type E3 ubiquitin transferase
NAD(P)-binding Rossmann-fold domains	1	INHERITED FROM: Lovastatin nonaketide synthase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || 6-methylsalicylic acid synthase || Fatty-acyl-CoA synthase || Fatty-acid synthase || Narbonolide synthase || 6-deoxyerythronolide-B synthase || [Acyl-carrier-protein] S-acetyltransferase || ATP citrate synthase || 2-methylbutanoate polyketide synthase || 10-deoxymethynolide syntase
S-adenosyl-L-methionine-dependent methyltransferases	1	INHERITED FROM: Lovastatin nonaketide synthase || Fatty-acid synthase || [Acyl-carrier-protein] S-acetyltransferase || methoxycarbonyltransferase || 2-methylbutanoate polyketide synthase
Radical SAM enzymes	1	INHERITED FROM: Histone acetyltransferase
Clavaminate synthase-like	1	INHERITED FROM: methoxycarbonyltransferase
BRCT domain	1	INHERITED FROM: RING-type E3 ubiquitin transferase
Glutamine synthetase/guanido kinase	1	INHERITED FROM: Protein S-acyltransferase
tRNA-binding arm	1	INHERITED FROM: glycyltransferase
DHS-like NAD/FAD-binding domain	1	INHERITED FROM: Sulfoacetaldehyde acetyltransferase || Acyl groups converted into alkyl groups on transfer
4'-phosphopantetheinyl transferase	1	INHERITED FROM: Beta-ketoacyl-[acyl-carrier-protein] synthase I || Fatty-acyl-CoA synthase
P-loop containing nucleoside triphosphate hydrolases	1	INHERITED FROM: Phosphate acetyltransferase || tRNA(Met) cytidine acetyltransferase
Inosine monophosphate dehydrogenase (IMPDH)	1	INHERITED FROM: Fatty-acyl-CoA synthase || [Acyl-carrier-protein] S-malonyltransferase || [Acyl-carrier-protein] S-acetyltransferase
"Winged helix" DNA-binding domain	1	INHERITED FROM: Histone acetyltransferase
Carbamate kinase-like	1	INHERITED FROM: Amino-acid N-acetyltransferase
Fibronectin type III	1	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
FMN-linked oxidoreductases	1	INHERITED FROM: [Acyl-carrier-protein] S-malonyltransferase
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	1	INHERITED FROM: Aminoacyltransferases || Gamma-glutamyltransferase
SH2 domain	1	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
SH3-domain	1	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Zn-dependent exopeptidases	1	INHERITED FROM: Glutaminyl-peptide cyclotransferase
GroES-like	1	INHERITED FROM: Beta-ketoacyl-[acyl-carrier-protein] synthase I || [Acyl-carrier-protein] S-malonyltransferase || Fatty-acid synthase || [Acyl-carrier-protein] S-acetyltransferase || 2-methylbutanoate polyketide synthase
Glutathione synthetase ATP-binding domain-like	1	INHERITED FROM: ATP citrate synthase

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)
FabD-like	0	DIRECT
Filamin repeat (rod domain)	0	DIRECT
UBC-related	0	DIRECT
TAZ domain	0	DIRECT
U-box	0	DIRECT
DmpG/LeuA communication domain-like	0	DIRECT
Arylamine N-acetyltransferase	0	DIRECT
Glycerol-3-phosphate (1)-acyltransferase	0	DIRECT
Transcriptional factor domain	0	DIRECT
ZZ domain	0	DIRECT
Transglutaminase core	0	DIRECT
CPH domain	0	DIRECT
Chromo barrel domain	0	DIRECT
CCHHC domain	0	DIRECT
CHY zinc finger	0	DIRECT
PlsX-like	0	DIRECT
APC10-like	0	DIRECT
Mycobacterial antigens	0	DIRECT
Serine acetyltransferase	0	DIRECT
Tetrahydrodipicolinate-N-succinlytransferase, THDP-succinlytransferase, DapD	0	DIRECT
Acyl-carrier protein (ACP)	0	DIRECT
Gamma-glutamyltranspeptidase-like	0	DIRECT
Inhibitor of apoptosis (IAP) repeat	0	DIRECT
Thiolase-related	0	DIRECT
HLH, helix-loop-helix DNA-binding domain	0	DIRECT
N-acetyl transferase, NAT	0	DIRECT
Bromodomain	0	DIRECT
SWIB/MDM2 domain	0	DIRECT
Autoinducer synthetase	0	DIRECT
Methicillin resistance protein FemA probable tRNA-binding arm	0	DIRECT
N-terminal domain of cbl (N-cbl)	0	DIRECT
Ankyrin repeat	0	DIRECT
Phosphotransacetylase	0	DIRECT
SIAH, seven in absentia homolog	0	DIRECT
USP8 interacting domain	0	DIRECT
Transcription factor IIB (TFIIB), core domain	0	DIRECT
Ran binding protein zinc finger-like	0	DIRECT
CAT-like	0	DIRECT
WW domain	0	DIRECT
RING finger domain, C3HC4	0	DIRECT
NHL repeat	0	DIRECT
CCCH zinc finger	0	DIRECT
Lrp/AsnC-like transcriptional regulator C-terminal domain	0	DIRECT
PAS domain of steroid receptor coactivator 1A, NCo-A1	0	DIRECT
Probable ACP-binding domain of malonyl-CoA ACP transacylase	0	DIRECT
HMGL-like	0	DIRECT
Armadillo repeat	0	DIRECT
B-box zinc-binding domain	0	DIRECT
GABA-aminotransferase-like	0	DIRECT
PHD domain	0	DIRECT
Docking domain B of the erythromycin polyketide synthase (DEBS)	0	DIRECT
UDP-glucose pyrophosphorylase	0	DIRECT
Transglutaminase, two C-terminal domains	0	DIRECT
UDP N-acetylglucosamine acyltransferase	0	DIRECT
Biotinyl/lipoyl-carrier proteins and domains	0	DIRECT
FemXAB nonribosomal peptidyltransferases	0	DIRECT
BRCT domain	0	DIRECT
GlmU C-terminal domain-like	0	DIRECT
Homeodomain	0	DIRECT
Leucine zipper domain	0	DIRECT
Malate synthase G	0	DIRECT
SPRY domain	0	DIRECT
Kix domain of CBP (creb binding protein)	0	DIRECT
Trimerization domain of TRAF	0	DIRECT
Zinc hairpin stack	0	DIRECT
N-myristoyl transferase, NMT	0	DIRECT
Formylmethanofuran:tetrahydromethanopterin formyltransferase	0	DIRECT
Galactoside acetyltransferase-like	0	DIRECT
WWE domain	0	DIRECT
LplA-like	0	DIRECT
YeaZ-like	0	DIRECT
Nuclear receptor coactivator interlocking domain	0	DIRECT
Chalcone synthase-like	0	DIRECT
Transglutaminase N-terminal domain	0	DIRECT
O-acetyltransferase	0	DIRECT
Hypoxia-inducible factor Hif2a, C-terminal domain	0	DIRECT
PABC (PABP) domain	0	DIRECT
Phytochelatin synthase	0	DIRECT
LFTR-like	0	DIRECT
Choline/Carnitine O-acyltransferase	0	DIRECT
Glutaminyl-peptide cyclotransferase-like	0	DIRECT
2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain	0	DIRECT
Mib/herc2 domain	0	DIRECT
Outer membrane enzyme PagP	0	DIRECT
Acetyl-CoA synthase	0	DIRECT
AstA-like	0	DIRECT
Aminoglycoside 3-N-acetyltransferase-like	0	DIRECT
HTS-like	0	DIRECT
Citrate synthase	0	DIRECT
Hect, E3 ligase catalytic domain	0	DIRECT
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
ArgJ-like	0	DIRECT
Variant RING domain	0	DIRECT
MATH domain	5.508e-16	DIRECT
PFL-like	0.000000000000001276	DIRECT
WD40-repeat	0.0000000000006344	DIRECT
DRTGG domain	0.0000000000008566	DIRECT
Classic zinc finger, C2H2	0.00000000002093	DIRECT
Pentapeptide repeats	0.0000000001548	DIRECT
SAP domain	0.0000000001944	DIRECT
SRA domain-like	0.000000001206	DIRECT
Ubiquitin-related	0.000000002548	DIRECT
Thioesterase domain of polypeptide, polyketide and fatty acid synthases	0.000000003126	DIRECT
Leucine rich effector protein YopM	0.000000007638	DIRECT
FHA domain	0.000000008446	DIRECT
Sterol carrier protein, SCP	0.00000004363	DIRECT
CoA-binding domain	0.00000291	DIRECT
Hypoxia-inducible factor HIF ihhibitor (FIH1)	0.000003129	DIRECT
FYVE, a phosphatidylinositol-3-phosphate binding domain	0.000004	DIRECT
Regulator of chromosome condensation RCC1	0.000004369	DIRECT
Tropomyosin	0.000004699	DIRECT
EF-hand modules in multidomain proteins	0.00001167	DIRECT
Leucine carboxy methyltransferase Ppm1	0.00003083	DIRECT
MaoC-like	0.00003573	DIRECT
PA domain	0.00005616	DIRECT
UBA domain	0.0001174	DIRECT
PDZ domain	0.0001174	DIRECT
CBS-domain pair	0.0002431	DIRECT
TAF(II)230 TBP-binding fragment	0.0002926	DIRECT
Acetyl-CoA synthetase-like	0.0004047	DIRECT
First domain of FERM	0.003408	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Third domain of FERM	0.003408	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Caspase recruitment domain, CARD	0.0328	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
RWD domain	0.04386	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Branched-chain alpha-keto acid dehydrogenase Pyr module	0.04583	INHERITED FROM: Dihydrolipoyllysine-residue succinyltransferase
Branched-chain alpha-keto acid dehydrogenase PP module	0.04904	INHERITED FROM: Dihydrolipoyllysine-residue succinyltransferase
Second domain of FERM	0.07786	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Tetratricopeptide repeat (TPR)	0.0998	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Glutamine synthetase, N-terminal domain	0.1489	INHERITED FROM: Protein S-acyltransferase
Glutamine synthetase catalytic domain	0.1813	INHERITED FROM: Protein S-acyltransferase
PLC-like (P variant)	0.2569	INHERITED FROM: Aminoacyltransferases || HECT-type E3 ubiquitin transferase
Cyclophilin (peptidylprolyl isomerase)	0.3023	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
HpcH/HpaI aldolase	0.4146	INHERITED FROM: Malate synthase || Acyl groups converted into alkyl groups on transfer
Chromo domain	0.4499	INHERITED FROM: Histone acetyltransferase
Pyruvate oxidase and decarboxylase, middle domain	0.6354	INHERITED FROM: Sulfoacetaldehyde acetyltransferase || Acyl groups converted into alkyl groups on transfer
Serine carboxypeptidase-like	0.8197	INHERITED FROM: Sinapoylglucose--sinapoylglucose O-sinapoyltransferase
Alcohol dehydrogenase-like, C-terminal domain	0.8622	INHERITED FROM: Beta-ketoacyl-[acyl-carrier-protein] synthase I || [Acyl-carrier-protein] S-malonyltransferase || Fatty-acid synthase || [Acyl-carrier-protein] S-acetyltransferase || 2-methylbutanoate polyketide synthase
Alcohol dehydrogenase-like, N-terminal domain	0.9226	INHERITED FROM: Beta-ketoacyl-[acyl-carrier-protein] synthase I || [Acyl-carrier-protein] S-malonyltransferase || Fatty-acid synthase || [Acyl-carrier-protein] S-acetyltransferase || 2-methylbutanoate polyketide synthase
Fibronectin type III	0.9347	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Tyrosine-dependent oxidoreductases	0.952	INHERITED FROM: Lovastatin nonaketide synthase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || 6-methylsalicylic acid synthase || [Acyl-carrier-protein] S-malonyltransferase || Fatty-acid synthase || Narbonolide synthase || 6-deoxyerythronolide-B synthase || [Acyl-carrier-protein] S-acetyltransferase || 2-methylbutanoate polyketide synthase || 10-deoxymethynolide syntase
SH3-domain	0.9644	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Pyruvate oxidase and decarboxylase Pyr module	1	INHERITED FROM: Sulfoacetaldehyde acetyltransferase
N-acetyl-l-glutamate kinase	1	INHERITED FROM: Transferring groups other than amino-acyl groups || Amino-acid N-acetyltransferase
Succinyl-CoA synthetase domains	1	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || ATP citrate synthase
Pyruvate oxidase and decarboxylase PP module	1	INHERITED FROM: Sulfoacetaldehyde acetyltransferase || Acyl groups converted into alkyl groups on transfer
Holo-(acyl carrier protein) synthase ACPS	1	INHERITED FROM: Beta-ketoacyl-[acyl-carrier-protein] synthase I || Fatty-acyl-CoA synthase
Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain	1	INHERITED FROM: Lysyltransferase
Class I aldolase	1	INHERITED FROM: 3-hydroxy-5-phosphonooxypentane-2,4-dione thiolase
Calmodulin-like	1	INHERITED FROM: 1-alkylglycerophosphocholine O-acetyltransferase || 1-acylglycerophosphocholine O-acyltransferase || 1-acylglycerol-3-phosphate O-acyltransferase
Crotonase-like	1	INHERITED FROM: Histone acetyltransferase
Succinyl-CoA synthetase, beta-chain, N-terminal domain	1	INHERITED FROM: ATP citrate synthase
SH2 domain	1	INHERITED FROM: Aminoacyltransferases || RING-type E3 ubiquitin transferase
Anticodon-binding domain	1	INHERITED FROM: Lysyltransferase

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)
PABC (PABP) domain	0	DIRECT
CoA-dependent acyltransferases	0	DIRECT
Thiolase-like	0	DIRECT
TAZ domain	0	DIRECT
UBC-like	0	DIRECT
B-box zinc-binding domain	0	DIRECT
ACP-like	0	DIRECT
alpha/beta-Hydrolases	0	DIRECT
Mib/herc2 domain-like	0	DIRECT
OMPA-like	0	DIRECT
WWE domain	0	DIRECT
Concanavalin A-like lectins/glucanases	0	DIRECT
Zinc hairpin stack	0	DIRECT
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
FYVE/PHD zinc finger	0	DIRECT
PA domain	0	DIRECT
Glycerol-3-phosphate (1)-acyltransferase	0	DIRECT
Formylmethanofuran:tetrahydromethanopterin formyltransferase	0	DIRECT
ClpS-like	0	DIRECT
Leucine zipper domain	0	DIRECT
Single hybrid motif	0	DIRECT
HLH, helix-loop-helix DNA-binding domain	0	DIRECT
N-terminal domain of cbl (N-cbl)	0	DIRECT
Malate synthase G	0	DIRECT
Probable ACP-binding domain of malonyl-CoA ACP transacylase	0	DIRECT
Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
FabD/lysophospholipase-like	0	DIRECT
Aldolase	0	DIRECT
Bromodomain	0	DIRECT
Hect, E3 ligase catalytic domain	0	DIRECT
Inhibitor of apoptosis (IAP) repeat	0	DIRECT
Isocitrate/Isopropylmalate dehydrogenase-like	0	DIRECT
Transglutaminase, two C-terminal domains	0	DIRECT
Nucleotide-diphospho-sugar transferases	0	DIRECT
SWIB/MDM2 domain	0	DIRECT
CHY zinc finger-like	0	DIRECT
Actin-like ATPase domain	0	DIRECT
NHL repeat	0	DIRECT
Ankyrin repeat	0	DIRECT
RING/U-box	0	DIRECT
Citrate synthase	0	DIRECT
ARM repeat	0	DIRECT
2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain	0	DIRECT
CCCH zinc finger	0	DIRECT
WW domain	0	DIRECT
TRAF domain-like	0	DIRECT
Kix domain of CBP (creb binding protein)	0	DIRECT
NRDP1 C-terminal domain-like	0	DIRECT
Trimeric LpxA-like enzymes	0	DIRECT
DmpA/ArgJ-like	0	DIRECT
Trimerization domain of TRAF	0	DIRECT
CCHHC domain	0	DIRECT
Nuclear receptor coactivator interlocking domain	0	DIRECT
post-HMGL domain-like	0	DIRECT
HprK N-terminal domain-like	0	DIRECT
Docking domain B of the erythromycin polyketide synthase (DEBS)	0	DIRECT
TTHA0583/YokD-like	0	DIRECT
Ran binding protein zinc finger-like	3.526e-16	DIRECT
Chromo domain-like	0.000000000000004873	DIRECT
WD40 repeat-like	0.0000000000000202	DIRECT
Class II aaRS and biotin synthetases	0.00000000000004222	DIRECT
SAP domain	0.0000000002294	DIRECT
Pentapeptide repeat-like	0.000000001844	DIRECT
SMAD/FHA domain	0.00000001056	DIRECT
UBA-like	0.00000006976	DIRECT
SCP-like	0.00000007235	DIRECT
RCC1/BLIP-II	0.000000303	DIRECT
Class I glutamine amidotransferase-like	0.0000003936	DIRECT
beta-beta-alpha zinc fingers	0.0000004155	DIRECT
Galactose oxidase, central domain	0.00000045	DIRECT
C2 domain (Calcium/lipid-binding domain, CaLB)	0.000004134	DIRECT
Cyclin-like	0.000018	DIRECT
Cysteine proteinases	0.00001904	DIRECT
Ubiquitin-like	0.00007278	DIRECT
Tropomyosin	0.00008462	DIRECT
TAF(II)230 TBP-binding fragment	0.0003067	DIRECT
vWA-like	0.0003361	DIRECT
CBS-domain pair	0.000673	DIRECT
Formin homology 2 domain (FH2 domain)	0.0007828	DIRECT
Kelch motif	0.001291	INHERITED FROM: methoxycarbonyltransferase || Transferring groups other than amino-acyl groups
Acetyl-CoA synthetase-like	0.002009	INHERITED FROM: Acyl-[acyl-carrier-protein]--phospholipid O-acyltransferase || Transferring groups other than amino-acyl groups
PFL-like glycyl radical enzymes	0.002026	INHERITED FROM: Formate C-acetyltransferase || Transferring groups other than amino-acyl groups
Homeodomain-like	0.01197	INHERITED FROM: Sphingosine N-acyltransferase
EF-hand	0.0467	INHERITED FROM: RING-type E3 ubiquitin transferase || 1-acylglycerophosphocholine O-acyltransferase || 1-acylglycerol-3-phosphate O-acyltransferase || 1-alkylglycerophosphocholine O-acetyltransferase
Prismane protein-like	0.0618	INHERITED FROM: CO-methylating acetyl-CoA synthase
Zinc beta-ribbon	0.06211	INHERITED FROM: Histone acetyltransferase
DEATH domain	0.06842	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
Second domain of FERM	0.09615	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
Glutamine synthetase, N-terminal domain	0.2161	INHERITED FROM: Protein S-acyltransferase
PDZ domain-like	0.2705	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
SGNH hydrolase	0.3171	INHERITED FROM: Diglucosylglycerate octanoyltransferase
Cyclophilin-like	0.4656	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
Tudor/PWWP/MBT	0.4851	INHERITED FROM: HECT-type E3 ubiquitin transferase
Dimeric alpha+beta barrel	0.6992	INHERITED FROM: Acyl groups converted into alkyl groups on transfer || Homocitrate synthase
RNA-binding domain, RBD	0.7158	INHERITED FROM: RING-type E3 ubiquitin transferase
PYP-like sensor domain (PAS domain)	0.7774	INHERITED FROM: Histone acetyltransferase || Transferring groups other than amino-acyl groups
TPR-like	0.8492	INHERITED FROM: RING-type E3 ubiquitin transferase
E set domains	0.9191	INHERITED FROM: Protein-glutamine gamma-glutamyltransferase || Aminoacyltransferases
PLP-dependent transferases	0.9249	INHERITED FROM: Glycine C-acetyltransferase || Serine C-palmitoyltransferase || 5-aminolevulinate synthase || 8-amino-7-oxononanoate synthase || Transferring groups other than amino-acyl groups
Fibronectin type III	0.9328	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
GroES-like	0.9417	INHERITED FROM: [Acyl-carrier-protein] S-malonyltransferase || Fatty-acid synthase || [Acyl-carrier-protein] S-acetyltransferase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || 2-methylbutanoate polyketide synthase
SH3-domain	0.9606	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
4'-phosphopantetheinyl transferase	1	INHERITED FROM: Fatty-acyl-CoA synthase || Beta-ketoacyl-[acyl-carrier-protein] synthase I
Thioesterase/thiol ester dehydrase-isomerase	1	INHERITED FROM: Fatty-acyl-CoA synthase || [Acyl-carrier-protein] S-malonyltransferase || [Acyl-carrier-protein] S-acetyltransferase
S-adenosyl-L-methionine-dependent methyltransferases	1	INHERITED FROM: Lovastatin nonaketide synthase || methoxycarbonyltransferase || Fatty-acid synthase || [Acyl-carrier-protein] S-acetyltransferase || 2-methylbutanoate polyketide synthase
Glutamine synthetase/guanido kinase	1	INHERITED FROM: Protein S-acyltransferase
L domain-like	1	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
BRCT domain	1	INHERITED FROM: RING-type E3 ubiquitin transferase
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
Phosphoenolpyruvate/pyruvate domain	1	INHERITED FROM: Malate synthase
NAD(P)-binding Rossmann-fold domains	1	INHERITED FROM: Narbonolide synthase || Lovastatin nonaketide synthase || 10-deoxymethynolide syntase || Fatty-acyl-CoA synthase || 6-methylsalicylic acid synthase || ATP citrate synthase || Fatty-acid synthase || [Acyl-carrier-protein] S-acetyltransferase || 6-deoxyerythronolide-B synthase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || 2-methylbutanoate polyketide synthase
"Winged helix" DNA-binding domain	1	INHERITED FROM: Histone acetyltransferase
Nucleic acid-binding proteins	1	INHERITED FROM: Lysyltransferase
Inosine monophosphate dehydrogenase (IMPDH)	1	INHERITED FROM: Fatty-acyl-CoA synthase || [Acyl-carrier-protein] S-malonyltransferase || [Acyl-carrier-protein] S-acetyltransferase
SH2 domain	1	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
tRNA-binding arm	1	INHERITED FROM: glycyltransferase
DHS-like NAD/FAD-binding domain	1	INHERITED FROM: Sulfoacetaldehyde acetyltransferase || Acyl groups converted into alkyl groups on transfer
Galactose-binding domain-like	1	INHERITED FROM: HECT-type E3 ubiquitin transferase
P-loop containing nucleoside triphosphate hydrolases	1	INHERITED FROM: tRNA(Met) cytidine acetyltransferase || Phosphate acetyltransferase
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	1	INHERITED FROM: Gamma-glutamyltransferase || Aminoacyltransferases
Clavaminate synthase-like	1	INHERITED FROM: methoxycarbonyltransferase
Succinyl-CoA synthetase domains	1	INHERITED FROM: ATP citrate synthase || Acyl groups converted into alkyl groups on transfer
Radical SAM enzymes	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
PUA domain-like	1	INHERITED FROM: RING-type E3 ubiquitin transferase
Carbamate kinase-like	1	INHERITED FROM: Amino-acid N-acetyltransferase

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)
90229,57850 90229 - CCCH zinc finger 57850 - RING/U-box	0	DIRECT
49785,50985 49785 - Galactose-binding domain-like 50985 - RCC1/BLIP-II	0	DIRECT
49599,160088 49599 - TRAF domain-like 160088 - NRDP1 C-terminal domain-like	0	DIRECT
117281,51197 117281 - Kelch motif 51197 - Clavaminate synthase-like	0	DIRECT
53901,53901 53901 - Thiolase-like 53901 - Thiolase-like	0	DIRECT
52151,55048 52151 - FabD/lysophospholipase-like 55048 - Probable ACP-binding domain of malonyl-CoA ACP transacylase	0	DIRECT
68906,57850 68906 - SAP domain 57850 - RING/U-box	0	DIRECT
55729,55729 55729 - Acyl-CoA N-acyltransferases (Nat) 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
55112,55112 55112 - Formylmethanofuran:tetrahydromethanopterin formyltransferase 55112 - Formylmethanofuran:tetrahydromethanopterin formyltransferase	0	DIRECT
161219,161245 161219 - CHY zinc finger-like 161245 - Zinc hairpin stack	0	DIRECT
89000,110921 89000 - post-HMGL domain-like 110921 - 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain	0	DIRECT
48403,52113 48403 - Ankyrin repeat 52113 - BRCT domain	0	DIRECT
161245,57850 161245 - Zinc hairpin stack 57850 - RING/U-box	0	DIRECT
90209,57850 90209 - Ran binding protein zinc finger-like 57850 - RING/U-box	0	DIRECT
57953,49599 57953 - Trimerization domain of TRAF 49599 - TRAF domain-like	0	DIRECT
47592,90209 47592 - SWIB/MDM2 domain 90209 - Ran binding protein zinc finger-like	0	DIRECT
102114,55729 102114 - Radical SAM enzymes 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
57850,49599 57850 - RING/U-box 49599 - TRAF domain-like	0	DIRECT
90229,90229 90229 - CCCH zinc finger 90229 - CCCH zinc finger	0	DIRECT
54001,49309 54001 - Cysteine proteinases 49309 - Transglutaminase, two C-terminal domains	0	DIRECT
50044,50044 50044 - SH3-domain 50044 - SH3-domain	0	DIRECT
57924,57924 57924 - Inhibitor of apoptosis (IAP) repeat 57924 - Inhibitor of apoptosis (IAP) repeat	0	DIRECT
55550,57850 55550 - SH2 domain 57850 - RING/U-box	0	DIRECT
48371,117839 48371 - ARM repeat 117839 - WWE domain	0	DIRECT
57850,57933 57850 - RING/U-box 57933 - TAZ domain	0	DIRECT
81296,101898 81296 - E set domains 101898 - NHL repeat	0	DIRECT
57850,52540 57850 - RING/U-box 52540 - P-loop containing nucleoside triphosphate hydrolases	0	DIRECT
51735,51735 51735 - NAD(P)-binding Rossmann-fold domains 51735 - NAD(P)-binding Rossmann-fold domains	0	DIRECT
75138,53659 75138 - HprK N-terminal domain-like 53659 - Isocitrate/Isopropylmalate dehydrogenase-like	0	DIRECT
57850,101898 57850 - RING/U-box 101898 - NHL repeat	0	DIRECT
51569,54909 51569 - Aldolase 54909 - Dimeric alpha+beta barrel	0	DIRECT
47473,55550 47473 - EF-hand 55550 - SH2 domain	0	DIRECT
57850,57667 57850 - RING/U-box 57667 - beta-beta-alpha zinc fingers	0	DIRECT
57850,117839 57850 - RING/U-box 117839 - WWE domain	0	DIRECT
50965,51197 50965 - Galactose oxidase, central domain 51197 - Clavaminate synthase-like	0	DIRECT
53067,56112 53067 - Actin-like ATPase domain 56112 - Protein kinase-like (PK-like)	0	DIRECT
51230,51230 51230 - Single hybrid motif 51230 - Single hybrid motif	0	DIRECT
47459,55785 47459 - HLH, helix-loop-helix DNA-binding domain 55785 - PYP-like sensor domain (PAS domain)	0	DIRECT
53901,55718 53901 - Thiolase-like 55718 - SCP-like	0	DIRECT
159034,57850 159034 - Mib/herc2 domain-like 57850 - RING/U-box	0	DIRECT
57903,57850 57903 - FYVE/PHD zinc finger 57850 - RING/U-box	0	DIRECT
49599,49599 49599 - TRAF domain-like 49599 - TRAF domain-like	0	DIRECT
51230,52777 51230 - Single hybrid motif 52777 - CoA-dependent acyltransferases	0	DIRECT
52151,51412 52151 - FabD/lysophospholipase-like 51412 - Inosine monophosphate dehydrogenase (IMPDH)	0	DIRECT
81296,54001 81296 - E set domains 54001 - Cysteine proteinases	0	DIRECT
69593,47473 69593 - Glycerol-3-phosphate (1)-acyltransferase 47473 - EF-hand	0	DIRECT
51735,48256 51735 - NAD(P)-binding Rossmann-fold domains 48256 - Citrate synthase	0	DIRECT
54495,57850 54495 - UBC-like 57850 - RING/U-box	0	DIRECT
52540,75138 52540 - P-loop containing nucleoside triphosphate hydrolases 75138 - HprK N-terminal domain-like	0	DIRECT
49879,57850 49879 - SMAD/FHA domain 57850 - RING/U-box	0	DIRECT
51230,47005 51230 - Single hybrid motif 47005 - Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
54160,55729 54160 - Chromo domain-like 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
53448,51161 53448 - Nucleotide-diphospho-sugar transferases 51161 - Trimeric LpxA-like enzymes	0	DIRECT
52540,55729 52540 - P-loop containing nucleoside triphosphate hydrolases 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
49562,51045 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 51045 - WW 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
51735,47336 51735 - NAD(P)-binding Rossmann-fold domains 47336 - ACP-like	0	DIRECT
51045,51045 51045 - WW domain 51045 - WW domain	0	DIRECT
51569,89000 51569 - Aldolase 89000 - post-HMGL domain-like	0	DIRECT
54236,90209 54236 - Ubiquitin-like 90209 - Ran binding protein zinc finger-like	0	DIRECT
48403,57850 48403 - Ankyrin repeat 57850 - RING/U-box	0	DIRECT
49309,49309 49309 - Transglutaminase, two C-terminal domains 49309 - Transglutaminase, two C-terminal domains	0	DIRECT
52025,57850 52025 - PA domain 57850 - RING/U-box	0	DIRECT
53633,55729 53633 - Carbamate kinase-like 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
47005,52777 47005 - Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex 52777 - CoA-dependent acyltransferases	0	DIRECT
49265,49899 49265 - Fibronectin type III 49899 - Concanavalin A-like lectins/glucanases	0	DIRECT
53067,53067 53067 - Actin-like ATPase domain 53067 - Actin-like ATPase domain	0	DIRECT
55729,46589 55729 - Acyl-CoA N-acyltransferases (Nat) 46589 - tRNA-binding arm	0	DIRECT
49599,57953 49599 - TRAF domain-like 57953 - Trimerization domain of TRAF	0	DIRECT
52777,52777 52777 - CoA-dependent acyltransferases 52777 - CoA-dependent acyltransferases	0	DIRECT
57783,47954 57783 - Zinc beta-ribbon 47954 - Cyclin-like	0	DIRECT
46785,57903 46785 - "Winged helix" DNA-binding domain 57903 - FYVE/PHD zinc finger	0	DIRECT
54637,52151 54637 - Thioesterase/thiol ester dehydrase-isomerase 52151 - FabD/lysophospholipase-like	0	DIRECT
57850,48371 57850 - RING/U-box 48371 - ARM repeat	0	DIRECT
53300,57850 53300 - vWA-like 57850 - RING/U-box	0	DIRECT
56112,57850 56112 - Protein kinase-like (PK-like) 57850 - RING/U-box	0	DIRECT
57850,57845 57850 - RING/U-box 57845 - B-box zinc-binding domain	0	DIRECT
57850,50978 57850 - RING/U-box 50978 - WD40 repeat-like	0	DIRECT
63570,56204 63570 - PABC (PABP) domain 56204 - Hect, E3 ligase catalytic domain	0	DIRECT
49599,50156 49599 - TRAF domain-like 50156 - PDZ domain-like	0	DIRECT
47668,47473 47668 - N-terminal domain of cbl (N-cbl) 47473 - EF-hand	0	DIRECT
53335,50965 53335 - S-adenosyl-L-methionine-dependent methyltransferases 50965 - Galactose oxidase, central domain	0	DIRECT
57850,57850 57850 - RING/U-box 57850 - RING/U-box	0	DIRECT
57850,159034 57850 - RING/U-box 159034 - Mib/herc2 domain-like	0	DIRECT
53474,54631 53474 - alpha/beta-Hydrolases 54631 - CBS-domain pair	0	DIRECT
117839,117839 117839 - WWE domain 117839 - WWE domain	0	DIRECT
51045,56204 51045 - WW domain 56204 - Hect, E3 ligase catalytic domain	0	DIRECT
47954,47954 47954 - Cyclin-like 47954 - Cyclin-like	0	DIRECT
52210,51735 52210 - Succinyl-CoA synthetase domains 51735 - NAD(P)-binding Rossmann-fold domains	0	DIRECT
48452,57850 48452 - TPR-like 57850 - RING/U-box	0	DIRECT
49785,159034 49785 - Galactose-binding domain-like 159034 - Mib/herc2 domain-like	0	DIRECT
46589,55729 46589 - tRNA-binding arm 55729 - Acyl-CoA N-acyltransferases (Nat)	0	DIRECT
55729,47370 55729 - Acyl-CoA N-acyltransferases (Nat) 47370 - Bromodomain	0	DIRECT
47336,53474 47336 - ACP-like 53474 - alpha/beta-Hydrolases	0.00000000000008008	DIRECT
52113,52113 52113 - BRCT domain 52113 - BRCT domain	0.00000000000008669	DIRECT
49899,49899 49899 - Concanavalin A-like lectins/glucanases 49899 - Concanavalin A-like lectins/glucanases	0.000000001387	DIRECT
53335,51735 53335 - S-adenosyl-L-methionine-dependent methyltransferases 51735 - NAD(P)-binding Rossmann-fold domains	0.000000306	DIRECT
57903,47370 57903 - FYVE/PHD zinc finger 47370 - Bromodomain	0.000018	DIRECT
48371,48403 48371 - ARM repeat 48403 - Ankyrin repeat	0.00003956	DIRECT
47336,52777 47336 - ACP-like 52777 - CoA-dependent acyltransferases	0.0001056	DIRECT
47370,47370 47370 - Bromodomain 47370 - Bromodomain	0.0003067	DIRECT
54236,47031 54236 - Ubiquitin-like 47031 - Second domain of FERM	0.00364	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
57667,57667 57667 - beta-beta-alpha zinc fingers 57667 - beta-beta-alpha zinc fingers	0.00364	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
47031,50729 47031 - Second domain of FERM 50729 - PH domain-like	0.02876	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
55785,55785 55785 - PYP-like sensor domain (PAS domain) 55785 - PYP-like sensor domain (PAS domain)	0.05156	INHERITED FROM: Histone acetyltransferase || Transferring groups other than amino-acyl groups
57903,57903 57903 - FYVE/PHD zinc finger 57903 - FYVE/PHD zinc finger	0.07981	INHERITED FROM: Histone acetyltransferase || Transferring groups other than amino-acyl groups
48371,48371 48371 - ARM repeat 48371 - ARM repeat	0.09615	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
48452,48452 48452 - TPR-like 48452 - TPR-like	0.1751	INHERITED FROM: RING-type E3 ubiquitin transferase || Aminoacyltransferases
51735,50129 51735 - NAD(P)-binding Rossmann-fold domains 50129 - GroES-like	0.1776	INHERITED FROM: Beta-ketoacyl-[acyl-carrier-protein] synthase I
54368,55931 54368 - Glutamine synthetase, N-terminal domain 55931 - Glutamine synthetase/guanido kinase	0.2161	INHERITED FROM: Protein S-acyltransferase
50129,51735 50129 - GroES-like 51735 - NAD(P)-binding Rossmann-fold domains	0.9356	INHERITED FROM: [Acyl-carrier-protein] S-malonyltransferase || Fatty-acid synthase || [Acyl-carrier-protein] S-acetyltransferase || Beta-ketoacyl-[acyl-carrier-protein] synthase I || 2-methylbutanoate polyketide synthase
52518,52467 52518 - Thiamin diphosphate-binding fold (THDP-binding) 52467 - DHS-like NAD/FAD-binding domain	1	INHERITED FROM: Sulfoacetaldehyde acetyltransferase || 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: Sulfoacetaldehyde acetyltransferase || Acyl groups converted into alkyl groups on transfer
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
52518,52518 52518 - Thiamin diphosphate-binding fold (THDP-binding) 52518 - Thiamin diphosphate-binding fold (THDP-binding)	1	INHERITED FROM: Dihydrolipoyllysine-residue succinyltransferase
50249,55681 50249 - Nucleic acid-binding proteins 55681 - Class II aaRS and biotin synthetases	1	INHERITED FROM: Lysyltransferase