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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 AP term (Not in SDAP)
Highlighted in gray are those with FDR_all>0.001

SCOP term	FDR (all)	Annotation (direct or inherited)
Ammonium transporter	0	DIRECT
Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain	0	DIRECT
Ribosomal protein L13	0	DIRECT
Ribosomal L11/L12e N-terminal domain	0	DIRECT
4Fe-4S ferredoxins	0	DIRECT
Nucleotidylyl transferase	0	DIRECT
DNA breaking-rejoining enzymes	0	DIRECT
(Phosphotyrosine protein) phosphatases II	0	DIRECT
GroEL-intermediate domain like	0	DIRECT
SAICAR synthase-like	0	DIRECT
Cytochrome c oxidase subunit h	0	DIRECT
WW domain	0	DIRECT
Phosphofructokinase	0	DIRECT
Transducin (alpha subunit), insertion domain	0	DIRECT
Actin depolymerizing proteins	0	DIRECT
ACP-like	0	DIRECT
ATP synthase (F1-ATPase), gamma subunit	0	DIRECT
ValRS/IleRS/LeuRS editing domain	0	DIRECT
RibA-like	0	DIRECT
Elongation factor TFIIS domain 2	0	DIRECT
CRAL/TRIO domain	0	DIRECT
lambda repressor-like DNA-binding domains	0	DIRECT
FKBP-like	0	DIRECT
Domain of the SRP/SRP receptor G-proteins	0	DIRECT
RecA protein, C-terminal domain	0	DIRECT
Chelatase	0	DIRECT
FAH	0	DIRECT
Alpha subunit of glutamate synthase, C-terminal domain	0	DIRECT
Mitochondrial glycoprotein MAM33-like	0	DIRECT
SIS domain	0	DIRECT
Zn-binding ribosomal proteins	0	DIRECT
LuxS/MPP-like metallohydrolase	0	DIRECT
Tryptophan synthase beta subunit-like PLP-dependent enzymes	0	DIRECT
RplX-like	0	DIRECT
EPT/RTPC-like	0	DIRECT
Probable bacterial effector-binding domain	0	DIRECT
Subdomain of clathrin and coatomer appendage domain	0	DIRECT
Type II DNA topoisomerase	0	DIRECT
Ribosomal protein L4	0	DIRECT
Hypothetical protein TM0160	0	DIRECT
Electron transport accessory proteins	0	DIRECT
Nop domain	0	DIRECT
ARID-like	0	DIRECT
PLP-binding barrel	0	DIRECT
Prokaryotic type I DNA topoisomerase	0	DIRECT
Inorganic pyrophosphatase	0	DIRECT
Restriction endonuclease-like	0	DIRECT
LysM domain	0	DIRECT
Nucleoside diphosphate kinase, NDK	0	DIRECT
Acyl-CoA binding protein	0	DIRECT
PA domain	0	DIRECT
Ribosomal protein L14	0	DIRECT
SufE/NifU	0	DIRECT
Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	0	DIRECT
YhbY-like	0	DIRECT
RBP11-like subunits of RNA polymerase	0	DIRECT
PAH2 domain	0	DIRECT
UDP-glucose/GDP-mannose dehydrogenase C-terminal domain	0	DIRECT
Creatinase/prolidase N-terminal domain	0	DIRECT
Dimeric alpha+beta barrel	0	DIRECT
L28p-like	0	DIRECT
Cu,Zn superoxide dismutase-like	0	DIRECT
RuvA domain 2-like	0	DIRECT
post-AAA+ oligomerization domain-like	0	DIRECT
Mediator hinge subcomplex-like	0	DIRECT
Homocysteine S-methyltransferase	0	DIRECT
Hypothetical protein YjiA, C-terminal domain	0	DIRECT
Enolase C-terminal domain-like	0	DIRECT
Allene oxide cyclase-like	0	DIRECT
HSP90 C-terminal domain	0	DIRECT
Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	0	DIRECT
Sec7 domain	0	DIRECT
Rps17e-like	0	DIRECT
Enolase N-terminal domain-like	0	DIRECT
Heme-dependent catalase-like	0	DIRECT
CYTH-like phosphatases	0	DIRECT
eEF-1beta-like	0	DIRECT
eIF4e-like	0	DIRECT
Translational machinery components	0	DIRECT
LeuD/IlvD-like	0	DIRECT
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
Metal cation-transporting ATPase, ATP-binding domain N	0	DIRECT
Zinc-binding domain of translation initiation factor 2 beta	0	DIRECT
FMN-binding split barrel	0	DIRECT
Beta-D-glucan exohydrolase, C-terminal domain	0	DIRECT
alpha-helical ferredoxin	0	DIRECT
Oxidoreductase molybdopterin-binding domain	0	DIRECT
Nucleotidyltransferase	0	DIRECT
Ligand-binding domain in the NO signalling and Golgi transport	0	DIRECT
GAT-like domain	0	DIRECT
Cation efflux protein transmembrane domain-like	0	DIRECT
Ribosomal protein S10	0	DIRECT
Carbon-nitrogen hydrolase	0	DIRECT
YVTN repeat-like/Quinoprotein amine dehydrogenase	0	DIRECT
DNA repair protein MutS, domain I	0	DIRECT
Transcription factor IIA (TFIIA), beta-barrel domain	0	DIRECT
Metallo-dependent hydrolases	0	DIRECT
MOSC N-terminal domain-like	0	DIRECT
Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain	0	DIRECT
Prokaryotic type KH domain (KH-domain type II)	0	DIRECT
PX domain	0	DIRECT
Phosphoglycerate kinase	0	DIRECT
beta and beta-prime subunits of DNA dependent RNA-polymerase	0	DIRECT
Chorismate mutase II	0	DIRECT
AN1-like Zinc finger	0	DIRECT
Aconitase iron-sulfur domain	0	DIRECT
ALDH-like	0	DIRECT
Nicotinate/Quinolinate PRTase N-terminal domain-like	0	DIRECT
ADP-ribosylation	0	DIRECT
MurD-like peptide ligases, peptide-binding domain	0	DIRECT
Families 57/38 glycoside transferase middle domain	0	DIRECT
Ribosomal protein L6	0	DIRECT
Clc chloride channel	0	DIRECT
BSD domain-like	0	DIRECT
EF-G C-terminal domain-like	0	DIRECT
Cryptochrome/photolyase, N-terminal domain	0	DIRECT
Ribulose-phoshate binding barrel	0	DIRECT
FAD-dependent thiol oxidase	0	DIRECT
HRDC-like	0	DIRECT
L9 N-domain-like	0	DIRECT
Glutathione synthetase ATP-binding domain-like	0	DIRECT
LigT-like	0	DIRECT
C-terminal domain of alpha and beta subunits of F1 ATP synthase	0	DIRECT
Zn-dependent exopeptidases	0	DIRECT
Folate-binding domain	0	DIRECT
AMPKBI-like	0	DIRECT
Nucleoside hydrolase	0	DIRECT
Class II aaRS and biotin synthetases	0	DIRECT
MoaD/ThiS	0	DIRECT
Translation initiation factor 2 beta, aIF2beta, N-terminal domain	0	DIRECT
Lipocalins	0	DIRECT
Single hybrid motif	0	DIRECT
Acid phosphatase/Vanadium-dependent haloperoxidase	0	DIRECT
L-aspartase-like	0	DIRECT
Carbamate kinase-like	0	DIRECT
SH2 domain	0	DIRECT
Arabinanase/levansucrase/invertase	0	DIRECT
Activating enzymes of the ubiquitin-like proteins	0	DIRECT
C-terminal, gelsolin-like domain of Sec23/24	0	DIRECT
Endosomal sorting complex assembly domain	0	DIRECT
Tricorn protease domain 2	0	DIRECT
Glycoside hydrolase/deacetylase	0	DIRECT
NHL repeat	0	DIRECT
PABC (PABP) domain	0	DIRECT
Cytochrome c	0	DIRECT
Ribosomal protein L22	0	DIRECT
Amine oxidase N-terminal region	0	DIRECT
Globin-like	0	DIRECT
OMPA-like	0	DIRECT
DnaJ/Hsp40 cysteine-rich domain	0	DIRECT
N-terminal domain of alpha and beta subunits of F1 ATP synthase	0	DIRECT
Carbohydrate phosphatase	0	DIRECT
Initiation factor IF2/eIF5b, domain 3	0	DIRECT
SAM/Pointed domain	0	DIRECT
Ribosomal protein L1	0	DIRECT
Diaminopimelate epimerase-like	0	DIRECT
YrdC/RibB	0	DIRECT
RL5-like	0	DIRECT
Arp2/3 complex subunits	0	DIRECT
Lesion bypass DNA polymerase (Y-family), little finger domain	0	DIRECT
Tropomyosin	0	DIRECT
Granulin repeat	0	DIRECT
FMN-linked oxidoreductases	0	DIRECT
Peptidyl-tRNA hydrolase-like	0	DIRECT
Ribosomal protein L16p/L10e	0	DIRECT
Trm112p-like	0	DIRECT
Peptide methionine sulfoxide reductase	0	DIRECT
Cyclophilin-like	0	DIRECT
Oxysterol-binding protein-like	0	DIRECT
Alpha-L RNA-binding motif	0	DIRECT
Prefoldin	0	DIRECT
Head domain of nucleotide exchange factor GrpE	0	DIRECT
Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor	0	DIRECT
ACT-like	0	DIRECT
Glutamyl tRNA-reductase catalytic, N-terminal domain	0	DIRECT
Transcription factor IIA (TFIIA), alpha-helical domain	0	DIRECT
DNA repair protein MutS, domain II	0	DIRECT
Tim10-like	0	DIRECT
Ribosomal protein S6	0	DIRECT
VC0467-like	0	DIRECT
Heat shock protein 70kD (HSP70), C-terminal subdomain	0	DIRECT
Peptidyl-tRNA hydrolase II	0	DIRECT
S13-like H2TH domain	0	DIRECT
PIN domain-like	0	DIRECT
N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1	0	DIRECT
DNA topoisomerase IV, alpha subunit	0	DIRECT
RraA-like	0	DIRECT
Ran binding protein zinc finger-like	0	DIRECT
Nitrite and sulphite reductase 4Fe-4S domain-like	0	DIRECT
beta-N-acetylhexosaminidase-like domain	0	DIRECT
Ribosomal L27 protein-like	0	DIRECT
Class II aaRS ABD-related	0	DIRECT
tRNA-binding arm	0	DIRECT
Chlorophyll a-b binding protein	0	DIRECT
RuBisCo LSMT C-terminal, substrate-binding domain	0	DIRECT
Ribosomal protein L30p/L7e	0	DIRECT
HesB-like domain	0	DIRECT
6-phosphogluconate dehydrogenase C-terminal domain-like	0	DIRECT
PriA/YqbF domain	0	DIRECT
Cation efflux protein cytoplasmic domain-like	0	DIRECT
Cystatin/monellin	0	DIRECT
Helical domain of Sec23/24	0	DIRECT
Ribosomal protein L31e	0	DIRECT
Poly A polymerase C-terminal region-like	0	DIRECT
Zn-finger domain of Sec23/24	0	DIRECT
ThrRS/AlaRS common domain	0	DIRECT
AF1104-like	0	DIRECT
Profilin (actin-binding protein)	0	DIRECT
Cdc48 domain 2-like	0	DIRECT
Formate/glycerate dehydrogenase catalytic domain-like	0	DIRECT
Actin-crosslinking proteins	0	DIRECT
Putative isomerase YbhE	0	DIRECT
Band 7/SPFH domain	0	DIRECT
Ribosomal proteins L15p and L18e	0	DIRECT
Heat shock protein 70kD (HSP70), peptide-binding domain	0	DIRECT
RNase III domain-like	0	DIRECT
eIF1-like	0	DIRECT
ADC-like	0	DIRECT
SWIB/MDM2 domain	0	DIRECT
N-terminal domain of the delta subunit of the F1F0-ATP synthase	0	DIRECT
C-terminal autoproteolytic domain of nucleoporin nup98	0	DIRECT
EB1 dimerisation domain-like	0	DIRECT
ATP-dependent DNA ligase DNA-binding domain	0	DIRECT
Phosphoglucomutase, first 3 domains	0	DIRECT
Pseudouridine synthase	0	DIRECT
Crambin-like	0	DIRECT
SH3-domain	0	DIRECT
Magnesium transport protein CorA, transmembrane region	0	DIRECT
Tautomerase/MIF	0	DIRECT
VHP, Villin headpiece domain	0	DIRECT
GTPase activation domain, GAP	0	DIRECT
Sigma2 domain of RNA polymerase sigma factors	0	DIRECT
Pentapeptide repeat-like	0	DIRECT
TATA-box binding protein-like	0	DIRECT
Protein prenylyltransferase	0	DIRECT
S15/NS1 RNA-binding domain	0	DIRECT
Expressed protein At2g23090/F21P24.15	0	DIRECT
LanC-like	0	DIRECT
Isocitrate/Isopropylmalate dehydrogenase-like	0	DIRECT
Dihydrofolate reductase-like	0	DIRECT
AlbA-like	0	DIRECT
GHMP Kinase, C-terminal domain	0	DIRECT
Rap30/74 interaction domains	0	DIRECT
RuBisCO, small subunit	0	DIRECT
alpha/beta knot	0	DIRECT
Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	0	DIRECT
Seven-hairpin glycosidases	0	DIRECT
LexA/Signal peptidase	0	DIRECT
SMR domain-like	0	DIRECT
Formyltransferase	0	DIRECT
Metallo-hydrolase/oxidoreductase	0	DIRECT
DNA clamp	0	DIRECT
Ribonuclease PH domain 2-like	0	DIRECT
PAP/Archaeal CCA-adding enzyme, C-terminal domain	0	DIRECT
Tudor/PWWP/MBT	0	DIRECT
Gamma-glutamyl cyclotransferase-like	0	DIRECT
Heme oxygenase-like	0	DIRECT
Ribosomal protein L19 (L19e)	0	DIRECT
Fe-S cluster assembly (FSCA) domain-like	0	DIRECT
SMAD/FHA domain	0	DIRECT
ISP domain	0	DIRECT
DNA repair protein MutS, domain III	0	DIRECT
5' to 3' exonuclease, C-terminal subdomain	0	DIRECT
GlnB-like	0	DIRECT
Casein kinase II beta subunit	0	DIRECT
Creatinase/aminopeptidase	0	DIRECT
Outer arm dynein light chain 1	0	DIRECT
PreATP-grasp domain	0	DIRECT
Double Clp-N motif	0	DIRECT
Bacterial exopeptidase dimerisation domain	0	DIRECT
Sigma3 and sigma4 domains of RNA polymerase sigma factors	0	DIRECT
HIT-like	0	DIRECT
P-domain of calnexin/calreticulin	0	DIRECT
Glycolipid transfer protein, GLTP	0	DIRECT
Release factor	0	DIRECT
Conserved domain common to transcription factors TFIIS, elongin A, CRSP70	0	DIRECT
BEACH domain	0	DIRECT
Chromo domain-like	0	DIRECT
Prokaryotic ribosomal protein L17	0	DIRECT
Flavoproteins	0	DIRECT
Tubulin C-terminal domain-like	0	DIRECT
ssDNA-binding transcriptional regulator domain	0	DIRECT
Cytochrome b5-like heme/steroid binding domain	0	DIRECT
Coiled-coil domain of nucleotide exchange factor GrpE	0	DIRECT
Tubulin nucleotide-binding domain-like	0	DIRECT
BolA-like	0	DIRECT
UROD/MetE-like	0	DIRECT
V-type ATPase subunit E-like	0	DIRECT
Sec63 N-terminal domain-like	0	DIRECT
cAMP-binding domain-like	0	DIRECT
Preprotein translocase SecE subunit	0	DIRECT
Eukaryotic type KH-domain (KH-domain type I)	0	DIRECT
Hect, E3 ligase catalytic domain	0	DIRECT
Pentein	0	DIRECT
Sec1/munc18-like (SM) proteins	0	DIRECT
Clathrin adaptor appendage domain	0	DIRECT
Ribosomal protein S5 domain 2-like	0	DIRECT
Cryptochrome/photolyase FAD-binding domain	0	DIRECT
BAG domain	0	DIRECT
RCC1/BLIP-II	0	DIRECT
Rudiment single hybrid motif	0	DIRECT
Composite domain of metallo-dependent hydrolases	0	DIRECT
GINS helical bundle-like	0	DIRECT
Mitochondrial carrier	0	DIRECT
N-terminal, heterodimerisation domain of RBP7 (RpoE)	0	DIRECT
beta-sandwich domain of Sec23/24	0	DIRECT
Ribosomal protein L39e	0	DIRECT
ArfGap/RecO-like zinc finger	0	DIRECT
Insert subdomain of RNA polymerase alpha subunit	0	DIRECT
FF domain	0	DIRECT
PUG domain-like	0	DIRECT
Translation initiation factor IF3, N-terminal domain	0	DIRECT
RNA polymerase subunits	0	DIRECT
Phosphoglucomutase, C-terminal domain	0	DIRECT
Translation initiation factor IF3, C-terminal domain	0	DIRECT
Ribosomal proteins S24e, L23 and L15e	0	DIRECT
CRAL/TRIO N-terminal domain	0	DIRECT
DHS-like NAD/FAD-binding domain	0	DIRECT
F1F0 ATP synthase subunit C	0	DIRECT
Amine oxidase catalytic domain	0	DIRECT
Nicotinate/Quinolinate PRTase C-terminal domain-like	0	DIRECT
Oxygen-evolving enhancer protein 3,	0	DIRECT
DEK C-terminal domain	0	DIRECT
FAD-linked oxidoreductase	0	DIRECT
Glutamyl tRNA-reductase dimerization domain	0	DIRECT
Inosine monophosphate dehydrogenase (IMPDH)	0	DIRECT
Ribosomal protein S2	0	DIRECT
Leukotriene A4 hydrolase N-terminal domain	0	DIRECT
Smc hinge domain	0	DIRECT
Tetrahydrobiopterin biosynthesis enzymes-like	0	DIRECT
Lipoxigenase	0	DIRECT
Thymidylate synthase/dCMP hydroxymethylase	0	DIRECT
SAP domain	0	DIRECT
Ypt/Rab-GAP domain of gyp1p	0	DIRECT
PAP/OAS1 substrate-binding domain	0	DIRECT
Macro domain-like	0	DIRECT
Peptidase/esterase 'gauge' domain	0	DIRECT
Supernatant protein factor (SPF), C-terminal domain	0	DIRECT
GroEL apical domain-like	0	DIRECT
Signal peptide-binding domain	0	DIRECT
Mss4-like	0	DIRECT
DUSP-like	0	DIRECT
Radical SAM enzymes	0	DIRECT
NSFL1 (p97 ATPase) cofactor p47, SEP domain	0	DIRECT
ITPase-like	0	DIRECT
DNA ligase/mRNA capping enzyme, catalytic domain	0	DIRECT
Serine metabolism enzymes domain	0	DIRECT
Plus3-like	0	DIRECT
MurD-like peptide ligases, catalytic domain	0	DIRECT
beta-carbonic anhydrase, cab	0	DIRECT
Rubredoxin-like	0	DIRECT
S-adenosylmethionine synthetase	0	DIRECT
Chalcone isomerase	0	DIRECT
Retrovirus zinc finger-like domains	0	DIRECT
Translation proteins SH3-like domain	0	DIRECT
Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain	0	DIRECT
Staphylococcal nuclease	0	DIRECT
E2F-DP heterodimerization region	0	DIRECT
Trimeric LpxA-like enzymes	0	DIRECT
Mog1p/PsbP-like	0	DIRECT
TGS-like	0	DIRECT
HIT/MYND zinc finger-like	0	DIRECT
Ribosomal protein L10-like	0	DIRECT
Succinyl-CoA synthetase domains	0	DIRECT
FAD/NAD-linked reductases, dimerisation (C-terminal) domain	0	DIRECT
Ribosomal protein L29 (L29p)	0	DIRECT
DNA/RNA polymerases	0	DIRECT
NAP-like	0	DIRECT
HD-domain/PDEase-like	0	DIRECT
R3H domain	0	DIRECT
Tetrapyrrole methylase	0	DIRECT
Ribosomal protein S3 C-terminal domain	0	DIRECT
GYF domain	0	DIRECT
JAB1/MPN domain	0	DIRECT
Saposin	0	DIRECT
D-ribose-5-phosphate isomerase (RpiA), lid domain	0	DIRECT
Cysteine alpha-hairpin motif	0	DIRECT
XPC-binding domain	0	DIRECT
BAR/IMD domain-like	0	DIRECT
ARM repeat	0.0000007573	DIRECT
Nucleic acid-binding proteins	0.00002527	DIRECT
RNA-binding domain, RBD	0.00003247	DIRECT
P-loop containing nucleoside triphosphate hydrolases	0.00003473	DIRECT
Chaperone J-domain	0.00005189	DIRECT
WD40 repeat-like	0.0001363	DIRECT
Thioredoxin-like	0.000681	DIRECT
RING/U-box	0.002888	INHERITED FROM: pollen tube cell
HAD-like	0.003794	INHERITED FROM: ground tissue cell || mesophyll cell || parenchyma cell || gamete || pollen tube cell
PH domain-like	0.005622	INHERITED FROM: pollen tube cell
UBC-like	0.0113	INHERITED FROM: pollen tube cell
Protein kinase-like (PK-like)	0.01354	INHERITED FROM: cultured plant cell
Actin-like ATPase domain	0.01676	INHERITED FROM: pollen tube cell
Calcium ATPase, transmembrane domain M	0.02477	INHERITED FROM: ground tissue cell || mesophyll cell || parenchyma cell
Calcium ATPase, transduction domain A	0.02477	INHERITED FROM: ground tissue cell || mesophyll cell || parenchyma cell
C2 domain (Calcium/lipid-binding domain, CaLB)	0.04376	INHERITED FROM: pollen tube cell
SNARE fusion complex	0.0646	INHERITED FROM: pollen tube cell
SNARE-like	0.0708	INHERITED FROM: pollen tube cell
Nucleotide-diphospho-sugar transferases	0.12	INHERITED FROM: ground tissue cell
t-snare proteins	0.1714	INHERITED FROM: pollen tube cell
DNase I-like	0.3785	INHERITED FROM: root hair cell || trichoblast
EF-hand	0.6016	INHERITED FROM: chlorenchyma cell || mesophyll cell || pollen tube cell
HMG-box	0.6072	INHERITED FROM: cultured plant cell
Adenine nucleotide alpha hydrolases-like	0.6082	INHERITED FROM: trichoblast
Acyl-CoA dehydrogenase C-terminal domain-like	0.6285	INHERITED FROM: pollen tube cell
Ubiquitin-like	0.6529	INHERITED FROM: gamete || pollen tube cell
Acyl-CoA dehydrogenase NM domain-like	0.6715	INHERITED FROM: pollen tube cell
Cullin repeat-like	0.7542	INHERITED FROM: root epidermal cell || root hair cell
Concanavalin A-like lectins/glucanases	0.986	INHERITED FROM: root epidermal cell
FAD-binding/transporter-associated domain-like	0.9934	INHERITED FROM: embryo sac cell
PR-1-like	1	INHERITED FROM: root epidermal cell
Homeodomain-like	1	INHERITED FROM: meristematic cell || non-hair root epidermal cell || embryo basal cell
Bet v1-like	1	INHERITED FROM: meristematic cell
HLH, helix-loop-helix DNA-binding domain	1	INHERITED FROM: root epidermal cell
SRF-like	1	INHERITED FROM: embryo sac cell || antipodal cell || plant zygote
Subtilisin-like	1	INHERITED FROM: embryo sac cell
Heme-dependent peroxidases	1	INHERITED FROM: root hair cell || trichoblast
Cupredoxins	1	INHERITED FROM: embryo sac central cell || papilla cell || epidermal pavement cell
Cysteine-rich domain	1	INHERITED FROM: root epidermal cell

Family domains annotated to this AP term (Not in SDAP)
Highlighted in gray are those with FDR_all>0.001

SCOP term	FDR (all)	Annotation (direct or inherited)
Folylpolyglutamate synthetase	0	DIRECT
Phosphoribosylpyrophosphate synthetase-like	0	DIRECT
Heat shock protein 70kD (HSP70), peptide-binding domain	0	DIRECT
Biotinyl/lipoyl-carrier proteins and domains	0	DIRECT
F1F0 ATP synthase subunit C	0	DIRECT
RraA-like	0	DIRECT
Cytochrome c oxidase subunit h	0	DIRECT
Lesion bypass DNA polymerase (Y-family), catalytic domain	0	DIRECT
HD domain	0	DIRECT
Inorganic pyrophosphatase	0	DIRECT
Glyoxalase I (lactoylglutathione lyase)	0	DIRECT
PWWP domain	0	DIRECT
Macro domain	0	DIRECT
Sec63 N-terminal domain	0	DIRECT
Rps17e-like	0	DIRECT
Ribosomal protein L39e	0	DIRECT
CAT-like	0	DIRECT
ECR1 N-terminal domain-like	0	DIRECT
Dimeric isocitrate & isopropylmalate dehydrogenases	0	DIRECT
PABC (PABP) domain	0	DIRECT
MioX-like	0	DIRECT
Gamma-glutamyl cyclotransferase-like	0	DIRECT
Ribosomal protein L29 (L29p)	0	DIRECT
EDF1-like	0	DIRECT
Eukaryotic DNA topoisomerase I, catalytic core	0	DIRECT
PhzC/PhzF-like	0	DIRECT
DEK C-terminal domain	0	DIRECT
Nucleoside hydrolase	0	DIRECT
FF domain	0	DIRECT
RecA protein, C-terminal domain	0	DIRECT
Glycolipid transfer protein, GLTP	0	DIRECT
MIF-related	0	DIRECT
Thioredoxin-like 2Fe-2S ferredoxin	0	DIRECT
Poly(A) polymerase, PAP, N-terminal domain	0	DIRECT
NAP-like	0	DIRECT
Leukotriene A4 hydrolase catalytic domain	0	DIRECT
EXOSC10 HRDC domain-like	0	DIRECT
DNA ligase/mRNA capping enzyme postcatalytic domain	0	DIRECT
Ribosomal protein S13	0	DIRECT
mRNA capping enzyme	0	DIRECT
AN1-like Zinc finger	0	DIRECT
Mo25 protein	0	DIRECT
Molybdenum-containing oxidoreductases-like dimerisation domain	0	DIRECT
HspBP1 domain	0	DIRECT
DNA repair protein MutS, domain I	0	DIRECT
B56-like	0	DIRECT
PX domain	0	DIRECT
BEACH domain	0	DIRECT
Signal peptide-binding domain	0	DIRECT
Poly A polymerase head domain-like	0	DIRECT
HesB-like domain	0	DIRECT
Met-10+ protein-like	0	DIRECT
Hypothetical protein YjiA, C-terminal domain	0	DIRECT
Mammalian PLC	0	DIRECT
Ribosomal protein L31e	0	DIRECT
YhbY-like	0	DIRECT
Crambin-like	0	DIRECT
ATP-dependent DNA ligase catalytic domain	0	DIRECT
Smr domain	0	DIRECT
Formate/glycerate dehydrogenases, NAD-domain	0	DIRECT
Nitrogenase iron protein-like	0	DIRECT
Ribonuclease PH domain 1-like	0	DIRECT
Glucose 6-phosphate dehydrogenase-like	0	DIRECT
Thymidylate synthase/dCMP hydroxymethylase	0	DIRECT
ERF1/Dom34 C-terminal domain-like	0	DIRECT
PreBEACH PH-like domain	0	DIRECT
VHP, Villin headpiece domain	0	DIRECT
Cdc48 N-terminal domain-like	0	DIRECT
DJ-1/PfpI	0	DIRECT
Myf domain	0	DIRECT
ATP sulfurylase N-terminal domain	0	DIRECT
DNA repair protein MutS, domain III	0	DIRECT
Ammonium transporter	0	DIRECT
N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1	0	DIRECT
Spermidine synthase	0	DIRECT
Ribosomal protein L6	0	DIRECT
Group II chaperonin (CCT, TRIC), ATPase domain	0	DIRECT
Ribosomal protein S10	0	DIRECT
HCP-like	0	DIRECT
Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain	0	DIRECT
Adenosine-5'phosphosulfate kinase (APS kinase)	0	DIRECT
Mitochondrial carrier	0	DIRECT
3-Methyladenine DNA glycosylase I (Tag)	0	DIRECT
Translation initiation factor IF3, C-terminal domain	0	DIRECT
D-ribulose-5-phosphate 3-epimerase	0	DIRECT
FAD/NAD-linked reductases, dimerisation (C-terminal) domain	0	DIRECT
Phosphoinositide-binding clathrin adaptor, domain 2	0	DIRECT
Mitochondrial glycoprotein MAM33-like	0	DIRECT
GroEL-like chaperone, apical domain	0	DIRECT
DNA gyrase/MutL, second domain	0	DIRECT
Ribosomal protein S27a	0	DIRECT
ZZ domain	0	DIRECT
5' to 3' exonuclease catalytic domain	0	DIRECT
UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase LpxC	0	DIRECT
Chromo barrel domain	0	DIRECT
PCI domain (PINT motif)	0	DIRECT
PyrH-like	0	DIRECT
BSD domain	0	DIRECT
beta-N-acetylhexosaminidase catalytic domain	0	DIRECT
Glycosyl hydrolases family 32 N-terminal domain	0	DIRECT
3,4-dihydroxy-2-butanone 4-phosphate synthase, DHBP synthase, RibB	0	DIRECT
28-residue LRR	0	DIRECT
Cell cycle arrest protein BUB3	0	DIRECT
GlmU C-terminal domain-like	0	DIRECT
Metal cation-transporting ATPase, ATP-binding domain N	0	DIRECT
Release factor	0	DIRECT
Peptide methionine sulfoxide reductase	0	DIRECT
Sec7 domain	0	DIRECT
DNA polymerase III clamp loader subunits, C-terminal domain	0	DIRECT
Pseudouridine synthase I TruA	0	DIRECT
Initiation factor IF2/eIF5b, domain 3	0	DIRECT
Gamma-glutamyltranspeptidase-like	0	DIRECT
Ribosomal protein L3	0	DIRECT
Bacterial dinuclear zinc exopeptidases	0	DIRECT
Phoshoinositide 3-kinase (PI3K), catalytic domain	0	DIRECT
RuBisCo LSMT catalytic domain	0	DIRECT
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	DIRECT
Ribonuclease PH domain 2-like	0	DIRECT
Peptidyl-tRNA hydrolase II	0	DIRECT
BC C-terminal domain-like	0	DIRECT
Ubiquitin activating enzymes (UBA)	0	DIRECT
ATP sulfurylase catalytic domain	0	DIRECT
Cytochrome b5	0	DIRECT
PUA domain	0	DIRECT
NOL1/NOP2/sun	0	DIRECT
Ribosomal protein L10e	0	DIRECT
Cytidylyltransferase	0	DIRECT
BolA-like	0	DIRECT
Methyl-CpG-binding domain, MBD	0	DIRECT
Oxysterol-binding protein	0	DIRECT
Plant lipoxigenases	0	DIRECT
Homoserine dehydrogenase-like	0	DIRECT
GroEL chaperone, ATPase domain	0	DIRECT
Ribosomal protein L5	0	DIRECT
Prolyl oligopeptidase, N-terminal domain	0	DIRECT
2Fe-2S ferredoxin-related	0	DIRECT
Ribosomal proteins L15p and L18e	0	DIRECT
Phytochrome-specific domain	0	DIRECT
Linker histone H1/H5	0	DIRECT
Beta-D-glucan exohydrolase, C-terminal domain	0	DIRECT
PAPS reductase-like	0	DIRECT
Prolyl oligopeptidase, C-terminal domain	0	DIRECT
eIF5a N-terminal domain-like	0	DIRECT
Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain	0	DIRECT
Subtilase propeptides/inhibitors	0	DIRECT
Preprotein translocase SecE subunit	0	DIRECT
N-type ATP pyrophosphatases	0	DIRECT
Poly A polymerase C-terminal region-like	0	DIRECT
cAMP-binding domain	0	DIRECT
Allosteric chorismate mutase	0	DIRECT
Cell cycle transcription factor e2f-dp	0	DIRECT
Class I alpha-1;2-mannosidase, catalytic domain	0	DIRECT
Cryptochrome/photolyase FAD-binding domain	0	DIRECT
Bacterial PLC	0	DIRECT
Hect, E3 ligase catalytic domain	0	DIRECT
Ribosomal protein S2	0	DIRECT
RibA-like	0	DIRECT
Pentapeptide repeats	0	DIRECT
Nop domain	0	DIRECT
Allene oxide cyclase-like	0	DIRECT
Profilin (actin-binding protein)	0	DIRECT
Shikimate kinase (AroK)	0	DIRECT
UEV domain	0	DIRECT
SAP domain	0	DIRECT
NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain	0	DIRECT
N-acetyl-l-glutamate kinase	0	DIRECT
Aconitase iron-sulfur domain	0	DIRECT
UDP-glucose/GDP-mannose dehydrogenase C-terminal domain	0	DIRECT
Transcriptional coactivator PC4 C-terminal domain	0	DIRECT
C-terminal autoproteolytic domain of nucleoporin nup98	0	DIRECT
C-terminal, gelsolin-like domain of Sec23/24	0	DIRECT
Clathrin adaptor appendage, alpha and beta chain-specific domain	0	DIRECT
Phosphoribulokinase/pantothenate kinase	0	DIRECT
SH3-domain	0	DIRECT
Phosphoenolpyruvate carboxylase	0	DIRECT
SufE-like	0	DIRECT
alpha-mannosidase	0	DIRECT
L-aspartase/fumarase	0	DIRECT
PaaI/YdiI-like	0	DIRECT
GDI-like N domain	0	DIRECT
Nuclear movement domain	0	DIRECT
Ribosomal S5 protein, N-terminal domain	0	DIRECT
NADPH-cytochrome p450 reductase FAD-binding domain-like	0	DIRECT
WW domain	0	DIRECT
alpha-Amylases, C-terminal beta-sheet domain	0	DIRECT
CRAL/TRIO domain	0	DIRECT
MPP-like	0	DIRECT
Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	0	DIRECT
Ribosomal protein S15	0	DIRECT
HIT (HINT, histidine triad) family of protein kinase-interacting proteins	0	DIRECT
Alpha subunit of glutamate synthase, C-terminal domain	0	DIRECT
Phosphofructokinase	0	DIRECT
AlkB-like	0	DIRECT
Inosine monophosphate dehydrogenase (IMPDH)	0	DIRECT
Proteasome subunits	0	DIRECT
Formyltransferase	0	DIRECT
Branched-chain alpha-keto acid dehydrogenase Pyr module	0	DIRECT
LIM domain	0	DIRECT
RNA-polymerase beta-prime	0	DIRECT
D-ribose-5-phosphate isomerase (RpiA), lid domain	0	DIRECT
Ypt/Rab-GAP domain of gyp1p	0	DIRECT
Cofilin-like	0	DIRECT
Casein kinase II beta subunit	0	DIRECT
eEF-1beta-like	0	DIRECT
HAL/PAL-like	0	DIRECT
C5 cytosine-specific DNA methylase, DCM	0	DIRECT
NLI interacting factor-like phosphatase	0	DIRECT
Starch-binding domain	0	DIRECT
SerA intervening domain-like	0	DIRECT
Thiolase-related	0	DIRECT
beta-carbonic anhydrase, cab	0	DIRECT
1,3-glucuronyltransferase	0	DIRECT
RWD domain	0	DIRECT
Cation efflux protein cytoplasmic domain-like	0	DIRECT
monodomain cytochrome c	0	DIRECT
Pyruvate oxidase and decarboxylase PP module	0	DIRECT
PLC-like (P variant)	0	DIRECT
Tudor domain	0	DIRECT
Tim10/DDP	0	DIRECT
Tubulin, GTPase domain	0	DIRECT
NSFL1 (p97 ATPase) cofactor p47, SEP domain	0	DIRECT
Tail specific protease, catalytic domain	0	DIRECT
Anticodon-binding domain of Class II aaRS	0	DIRECT
Coiled-coil domain of nucleotide exchange factor GrpE	0	DIRECT
Carbon-carbon bond hydrolase	0	DIRECT
FucT-like	0	DIRECT
Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain	0	DIRECT
Flavin-binding PAS domain	0	DIRECT
Enolase	0	DIRECT
Trehalose-6-phosphate synthase, OtsA	0	DIRECT
Hypothetical protein TM0160	0	DIRECT
Tryptophan synthase beta subunit-like PLP-dependent enzymes	0	DIRECT
Ribosomal protein L13	0	DIRECT
HSP90 C-terminal domain	0	DIRECT
GAPDH-like	0	DIRECT
Gastric lipase	0	DIRECT
FYVE, a phosphatidylinositol-3-phosphate binding domain	0	DIRECT
Ring hydroxylating alpha subunit ISP domain	0	DIRECT
PDI-like	0	DIRECT
Ribosomal L27 protein	0	DIRECT
beta-CASP RNA-metabolising hydrolases	0	DIRECT
Galectin (animal S-lectin)	0	DIRECT
NagD-like	0	DIRECT
GYF domain	0	DIRECT
Tubulin, C-terminal domain	0	DIRECT
Formate/glycerate dehydrogenases, substrate-binding domain	0	DIRECT
alpha-mannosidase, domain 2	0	DIRECT
PdxS-like	0	DIRECT
DNA topoisomerase IV, alpha subunit	0	DIRECT
Pyk2-associated protein beta ARF-GAP domain	0	DIRECT
FAD-dependent thiol oxidase	0	DIRECT
PA domain	0	DIRECT
LON domain-like	0	DIRECT
Pyruvate oxidase and decarboxylase Pyr module	0	DIRECT
Ribonuclease H	0	DIRECT
Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain	0	DIRECT
Steroid-binding domain	0	DIRECT
Cdc48 domain 2-like	0	DIRECT
RIO1-like kinases	0	DIRECT
Ribosomal protein L19 (L19e)	0	DIRECT
Hypothetical protein At2g34160	0	DIRECT
glucose-1-phosphate thymidylyltransferase	0	DIRECT
EF-G/eEF-2 domains III and V	0	DIRECT
Plant transcriptional regulator PBF-2	0	DIRECT
Oxidoreductase molybdopterin-binding domain	0	DIRECT
STAR domain	0	DIRECT
Cytidylytransferase	0	DIRECT
Swaposin	0	DIRECT
GAT domain	0	DIRECT
Glutamyl tRNA-reductase catalytic, N-terminal domain	0	DIRECT
Cobalamin-independent methionine synthase	0	DIRECT
RplX-like	0	DIRECT
ValRS/IleRS/LeuRS editing domain	0	DIRECT
Cytochrome p450 reductase N-terminal domain-like	0	DIRECT
SAM (sterile alpha motif) domain	0	DIRECT
Type II DNA topoisomerase	0	DIRECT
Clathrin adaptor core protein	0	DIRECT
beta-Galactosidase/glucuronidase, N-terminal domain	0	DIRECT
Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain	0	DIRECT
Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor	0	DIRECT
Prokaryotic ribosomal protein L17	0	DIRECT
HMGL-like	0	DIRECT
Armadillo repeat	0	DIRECT
Heme-dependent catalases	0	DIRECT
Prokaryotic type KH domain (KH-domain type II)	0	DIRECT
NHL repeat	0	DIRECT
Leukotriene A4 hydrolase N-terminal domain	0	DIRECT
BC ATP-binding domain-like	0	DIRECT
Diacylglycerol kinase-like	0	DIRECT
Translational machinery components	0	DIRECT
Cytochrome c oxidase Subunit F	0	DIRECT
Clp protease, ClpP subunit	0	DIRECT
XPF/Rad1/Mus81 nuclease	0	DIRECT
Ribosomal protein L18 and S11	0	DIRECT
UBX domain	0	DIRECT
N-terminal, heterodimerisation domain of RBP7 (RpoE)	0	DIRECT
Amine oxidase N-terminal region	0	DIRECT
Magnesium transport protein CorA, transmembrane region	0	DIRECT
Conserved domain common to transcription factors TFIIS, elongin A, CRSP70	0	DIRECT
Hsp90 middle domain	0	DIRECT
Sedlin (SEDL)	0	DIRECT
ATP synthase (F1-ATPase), gamma subunit	0	DIRECT
D-ribose-5-phosphate isomerase (RpiA), catalytic domain	0	DIRECT
PNP-oxidase like	0	DIRECT
ATP-dependent DNA ligase DNA-binding domain	0	DIRECT
ALDH-like	0	DIRECT
S-adenosylmethionine synthetase	0	DIRECT
Glycosyl hydrolases family 32 C-terminal domain	0	DIRECT
RelA/SpoT domain	0	DIRECT
Translation initiation factor 2 beta, aIF2beta, N-terminal domain	0	DIRECT
Rubredoxin	0	DIRECT
RNase Z-like	0	DIRECT
MutT-like	0	DIRECT
Cation efflux protein transmembrane domain-like	0	DIRECT
Neurolysin-like	0	DIRECT
6-phosphogluconate dehydrogenase-like, N-terminal domain	0	DIRECT
BAR domain	0	DIRECT
C-terminal domain of alpha and beta subunits of F1 ATP synthase	0	DIRECT
Cu,Zn superoxide dismutase-like	0	DIRECT
Chromo domain	0	DIRECT
WrbA-like	0	DIRECT
IF2B-like	0	DIRECT
V-type ATPase subunit E	0	DIRECT
Amylase, catalytic domain	0	DIRECT
5' to 3' exonuclease, C-terminal subdomain	0	DIRECT
LysM domain	0	DIRECT
Eukaryotic type KH-domain (KH-domain type I)	0	DIRECT
DnaQ-like 3'-5' exonuclease	0	DIRECT
G domain-linked domain	0	DIRECT
Trunk domain of Sec23/24	0	DIRECT
Phosphoglucomutase, first 3 domains	0	DIRECT
XPC-binding domain	0	DIRECT
Rieske iron-sulfur protein (ISP)	0	DIRECT
Gtf glycosyltransferase	0	DIRECT
FAH	0	DIRECT
Type 1 signal peptidase	0	DIRECT
UDP-glucose pyrophosphorylase	0	DIRECT
L23p	0	DIRECT
Gelsolin-like	0	DIRECT
Ribosomal protein L19	0	DIRECT
Tetramerization domain of potassium channels	0	DIRECT
Bacterial exopeptidase dimerisation domain	0	DIRECT
YicI N-terminal domain-like	0	DIRECT
Choline kinase	0	DIRECT
Aminoacid dehydrogenases	0	DIRECT
Alpha-adaptin ear subdomain-like	0	DIRECT
beta-Phosphoglucomutase-like	0	DIRECT
Ribosomal proteins L24p and L21e	0	DIRECT
Ribosomal protein L10-like	0	DIRECT
Anticodon-binding domain	0	DIRECT
L-aminoacid/polyamine oxidase	0	DIRECT
Tryptophan biosynthesis enzymes	0	DIRECT
NagZ-like	0	DIRECT
Galactosyltransferase LgtC	0	DIRECT
RNase III catalytic domain-like	0	DIRECT
CAF1-like ribonuclease	0	DIRECT
LEA14-like	0	DIRECT
IPP isomerase-like	0	DIRECT
VPS23 C-terminal domain	0	DIRECT
NifU/IscU domain	0	DIRECT
Cystatins	0	DIRECT
RNB domain-like	0	DIRECT
(Glycosyl)asparaginase	0	DIRECT
DUSP, domain in ubiquitin-specific proteases	0	DIRECT
Helical domain of Sec23/24	0	DIRECT
Penta-EF-hand proteins	0	DIRECT
Clathrin coat assembly domain	0	DIRECT
Acyl-ACP thioesterase-like	0	DIRECT
Sm motif of small nuclear ribonucleoproteins, SNRNP	0	DIRECT
SH2 domain	0	DIRECT
Regulator of chromosome condensation RCC1	0	DIRECT
Transducin (alpha subunit), insertion domain	0	DIRECT
Protein serine/threonine phosphatase	0	DIRECT
Tetrahydrofolate dehydrogenase/cyclohydrolase	0	DIRECT
DNase I-like	0	DIRECT
Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	0	DIRECT
DNA replication initiator (cdc21/cdc54) N-terminal domain	0	DIRECT
HEAT repeat	0	DIRECT
NADPH-cytochrome p450 reductase-like	0	DIRECT
DNA polymerase I	0	DIRECT
Ubiquitin carboxyl-terminal hydrolase UCH-L	0	DIRECT
Ferritin	0	DIRECT
Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain	0	DIRECT
Exostosin	0	DIRECT
Prefoldin	0	DIRECT
Chlorophyll a-b binding protein	0	DIRECT
Enolase N-terminal domain-like	0	DIRECT
PUG domain	0	DIRECT
ERF1/Dom34 middle domain-like	0	DIRECT
RNA methyltransferase FtsJ	0	DIRECT
Tetrapyrrole methylase	0	DIRECT
Protein prenyltransferases	0	DIRECT
Ribosomal protein S27e	0	DIRECT
Heat shock protein 90, HSP90, N-terminal domain	0	DIRECT
HAT/Suf repeat	0	DIRECT
Phosphoinositide-binding clathrin adaptor, N-terminal domain	0	DIRECT
Acyl-CoA binding protein	0	DIRECT
Cyclin	0	DIRECT
Group II chaperonin (CCT, TRIC), apical domain	0	DIRECT
UDP-glucose/GDP-mannose dehydrogenase dimerisation domain	0	DIRECT
Band 7/SPFH domain	0	DIRECT
Poly(A) polymerase, PAP, middle domain	0	DIRECT
MYND zinc finger	0	DIRECT
Arginine methyltransferase	0	DIRECT
Eukaryotic type heme oxygenase	0	DIRECT
Leucine aminopeptidase, C-terminal domain	0	DIRECT
GroEL-like chaperone, intermediate domain	0	DIRECT
NadC C-terminal domain-like	0	DIRECT
AMPKBI-like	0	DIRECT
Rps19E-like	0	DIRECT
Methionine aminopeptidase, insert domain	0	DIRECT
Sigma4 domain	0	DIRECT
RuBisCO, small subunit	0	DIRECT
Nucleoside diphosphate kinase, NDK	0	DIRECT
Inositol monophosphatase/fructose-1,6-bisphosphatase-like	0	DIRECT
ATP-dependent protease Lon (La), catalytic domain	0	DIRECT
RhoGDI-like	0	DIRECT
Poly(A) polymerase, PAP, C-terminal domain	0	DIRECT
GABARAP-like	0	DIRECT
Glycerol-3-phosphate dehydrogenase	0	DIRECT
AMPK-beta glycogen binding domain-like	0	DIRECT
Amine oxidase catalytic domain	0	DIRECT
Translation initiation factor eIF4e	0	DIRECT
C-terminal domain of ribosomal protein L2	0	DIRECT
BAG domain	0	DIRECT
Nitrite and sulphite reductase 4Fe-4S domain-like	0	DIRECT
Hypothetical protein HI1317	0	DIRECT
Tropomyosin	0	DIRECT
EB1 dimerisation domain-like	0	DIRECT
Ubiquitin carboxyl-terminal hydrolase, UCH	0	DIRECT
Lipoxigenase N-terminal domain	0	DIRECT
Succinyl-CoA synthetase, beta-chain, N-terminal domain	0	DIRECT
P-domain of calnexin/calreticulin	0	DIRECT
Hexokinase	0	DIRECT
alpha-mannosidase, C-terminal domain	0	DIRECT
RNA polymerase alpha subunit dimerisation domain	0	DIRECT
RecA protein-like (ATPase-domain)	0	DIRECT
DNA repair glycosylase, 2 C-terminal domains	0	DIRECT
VC0467-like	0	DIRECT
Domain of the SRP/SRP receptor G-proteins	0	DIRECT
Pirin-like	0	DIRECT
GHMP Kinase, N-terminal domain	0	DIRECT
Hydroxyisobutyrate and 6-phosphogluconate dehydrogenase domain	0	DIRECT
Zf-UBP	0	DIRECT
Transcription factor IIA (TFIIA), beta-barrel domain	0	DIRECT
GroES	0	DIRECT
MIF4G domain-like	0	DIRECT
Ribosomal protein L22	0	DIRECT
Ribosomal protein S3 C-terminal domain	0	DIRECT
Single strand DNA-binding domain, SSB	0	DIRECT
Transcription factor IIA (TFIIA), alpha-helical domain	0	DIRECT
Sec1/munc18-like (SM) proteins	0	DIRECT
NAD kinase-like	0	DIRECT
Ran binding protein zinc finger-like	0	DIRECT
N-terminal domain of alpha and beta subunits of F1 ATP synthase	0	DIRECT
5' nucleotidase-like	0	DIRECT
NadC N-terminal domain-like	0	DIRECT
Reductases	0	DIRECT
SelR domain	0	DIRECT
gamma-carbonic anhydrase-like	0	DIRECT
PB1 domain	0	DIRECT
RuBisCo LSMT C-terminal, substrate-binding domain	0	DIRECT
PsbO-like	0	DIRECT
Ribosomal protein L35ae	0	DIRECT
Creatinase/aminopeptidase	0	DIRECT
TRM1-like	0	DIRECT
Calcium ATPase, transmembrane domain M	0	DIRECT
Heat shock protein 70kD (HSP70), C-terminal subdomain	0	DIRECT
FMN-linked oxidoreductases	0	DIRECT
Arp2/3 complex subunits	0	DIRECT
Double Clp-N motif	0	DIRECT
Group II chaperonin (CCT, TRIC), intermediate domain	0	DIRECT
Plant stress-induced protein	0	DIRECT
Class I aldolase	0	DIRECT
SWIRM domain	0	DIRECT
Serine acetyltransferase	0	DIRECT
T7 RNA polymerase	0	DIRECT
Prokaryotic type I DNA topoisomerase	0	DIRECT
Acyl-carrier protein (ACP)	0	DIRECT
Zn-finger domain of Sec23/24	0	DIRECT
Deoxycytidylate deaminase-like	0	DIRECT
Oxygen-evolving enhancer protein 3,	0	DIRECT
BphP N-terminal domain-like	0	DIRECT
Glyoxalase II (hydroxyacylglutathione hydrolase)	0	DIRECT
Sigma2 domain of RNA polymerase sigma factors	0	DIRECT
Dual specificity phosphatase-like	0	DIRECT
Cryptochrome/photolyase, N-terminal domain	0	DIRECT
Internalin LRR domain	0	DIRECT
Retrovirus zinc finger-like domains	0	DIRECT
Cyclophilin (peptidylprolyl isomerase)	0	DIRECT
LeuD-like	0	DIRECT
Homocysteine S-methyltransferase	0	DIRECT
Phosphatidylinositol phosphate kinase IIbeta, PIPK IIbeta	0	DIRECT
Eps15 homology domain (EH domain)	0	DIRECT
Zinc-binding domain of translation initiation factor 2 beta	0	DIRECT
beta-sandwich domain of Sec23/24	0	DIRECT
Staphylococcal nuclease	0	DIRECT
CoA-binding domain	0	DIRECT
Ribosomal protein L4	0	DIRECT
VHS domain	0	DIRECT
Rap30/74 interaction domains	0	DIRECT
PAH2 domain	0	DIRECT
BC N-terminal domain-like	0	DIRECT
Phosphoglucomutase, C-terminal domain	0	DIRECT
Pseudouridine synthase RsuA/RluD	0	DIRECT
SWIB/MDM2 domain	0	DIRECT
Branched-chain alpha-keto acid dehydrogenase PP module	0	DIRECT
Outer arm dynein light chain 1	0	DIRECT
Ribosomal L11/L12e N-terminal domain	0	DIRECT
Smc hinge domain	0	DIRECT
Peptidyl-tRNA hydrolase-like	0	DIRECT
Chalcone isomerase	0	DIRECT
Translation initiation factor IF3, N-terminal domain	0	DIRECT
Ribosomal protein L1	0	DIRECT
Dihydrofolate reductases	0	DIRECT
Ribosomal protein L30p/L7e	0	DIRECT
RNA polymerase II subunit RBP4 (RpoF)	0	DIRECT
rRNA adenine dimethylase-like	0	DIRECT
FHA domain	0	DIRECT
Nucleotide and nucleoside kinases	0	DIRECT
FKBP immunophilin/proline isomerase	0	DIRECT
Class I aminoacyl-tRNA synthetases (RS), catalytic domain	0	DIRECT
AF1104-like	0	DIRECT
La domain	0	DIRECT
Hypothetical protein TM1112	0	DIRECT
Poly(ADP-ribose) polymerase, C-terminal domain	0	DIRECT
DnaJ/Hsp40 cysteine-rich domain	0	DIRECT
Clc chloride channel	0	DIRECT
Ribosomal protein L14	0	DIRECT
Aminomethyltransferase folate-binding domain	0	DIRECT
Pyruvate oxidase and decarboxylase, middle domain	0	DIRECT
Molybdenum cofactor biosynthesis protein MoeB	0	DIRECT
SOUL heme-binding protein	0	DIRECT
Cold shock DNA-binding domain-like	0	DIRECT
Sec63 C-terminal domain-like	0	DIRECT
ARID domain	0	DIRECT
Hermes transposase-like	0	DIRECT
Leucine aminopeptidase (Aminopeptidase A), N-terminal domain	0	DIRECT
Granulin repeat	0	DIRECT
Epoxide hydrolase	0	DIRECT
E2F dimerization segment	0	DIRECT
Elongation factor TFIIS domain 2	0	DIRECT
Dihydrodipicolinate reductase-like	0	DIRECT
eIF1-like	0	DIRECT
Alanine racemase-like, N-terminal domain	0	DIRECT
NifU C-terminal domain-like	0	DIRECT
UBA domain	0	DIRECT
Class-II DAHP synthetase	0	DIRECT
Hypoxia-inducible factor HIF ihhibitor (FIH1)	0	DIRECT
Ferredoxin domains from multidomain proteins	0	DIRECT
Aspartokinase allosteric domain-like	0	DIRECT
R3H domain	0	DIRECT
BCR-homology GTPase activation domain (BH-domain)	0	DIRECT
Phosphoglycerate kinase	0	DIRECT
Threonyl-tRNA synthetase (ThrRS), second 'additional' domain	0	DIRECT
Calnexin/calreticulin	0	DIRECT
PsbP-like	0	DIRECT
Biotin dependent carboxylase carboxyltransferase domain	0	DIRECT
LplA-like	0	DIRECT
RNA-polymerase beta	0	DIRECT
DNA polymerase processivity factor	0	DIRECT
Head domain of nucleotide exchange factor GrpE	0	DIRECT
Ribosomal protein L37e	0	DIRECT
Plus3	0	DIRECT
Succinyl-CoA synthetase domains	0	DIRECT
Pseudouridine synthase II TruB	0	DIRECT
Protein prenylyltransferase	0	DIRECT
SpoU-like RNA 2'-O ribose methyltransferase	0	DIRECT
Ran-binding domain	0	DIRECT
Ribosomal protein S6	0	DIRECT
Insert subdomain of RNA polymerase alpha subunit	0	DIRECT
CRAL/TRIO N-terminal domain	0	DIRECT
G proteins	0.00001474	DIRECT
Chaperone J-domain	0.00004086	DIRECT
Canonical RBD	0.00005036	DIRECT
WD40-repeat	0.0002654	DIRECT
Tandem AAA-ATPase domain	0.0008827	DIRECT
UBC-related	0.02044	INHERITED FROM: pollen tube cell
Calcium ATPase, transduction domain A	0.02259	INHERITED FROM: ground tissue cell || mesophyll cell || parenchyma cell
Protein kinases, catalytic subunit	0.03275	INHERITED FROM: cultured plant cell
SNARE fusion complex	0.05483	INHERITED FROM: pollen tube cell
Actin/HSP70	0.06646	INHERITED FROM: pollen tube cell
Meta-cation ATPase, catalytic domain P	0.07301	INHERITED FROM: ground tissue cell || mesophyll cell || parenchyma cell
t-snare proteins	0.168	INHERITED FROM: pollen tube cell
Calmodulin-like	0.3907	INHERITED FROM: pollen tube cell
Exocyst complex component	0.4527	INHERITED FROM: root epidermal cell || root hair cell
HMG-box	0.5866	INHERITED FROM: cultured plant cell
Inositol polyphosphate 5-phosphatase (IPP5)	0.7709	INHERITED FROM: root epidermal cell || root hair cell || trichoblast
HSP20	0.7873	INHERITED FROM: pollen tube cell
Glycosyl hydrolases family 16	0.8202	INHERITED FROM: root epidermal cell
Plastocyanin/azurin-like	0.9936	INHERITED FROM: embryo sac central cell
FAD-linked oxidases, N-terminal domain	1	INHERITED FROM: embryo sac cell
PR-1-like	1	INHERITED FROM: root epidermal cell
Plant invertase/pectin methylesterase inhibitor	1	INHERITED FROM: embryo sac cell
Subtilases	1	INHERITED FROM: embryo sac cell
HLH, helix-loop-helix DNA-binding domain	1	INHERITED FROM: root epidermal cell
Multidomain cupredoxins	1	INHERITED FROM: papilla cell || epidermal pavement cell
CCP-like	1	INHERITED FROM: root hair cell || trichoblast
SRF-like	1	INHERITED FROM: embryo sac cell || antipodal cell || plant zygote
Homeodomain	1	INHERITED FROM: meristematic cell