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PX domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   PX domain [ 64267]
Superfamily:   PX domain [ 64268]
Families:   PX domain [ 64269] (5)


Superfamily statistics
Genomes (507) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 11,111 29,582 8
Proteins 11,030 29,363 8


Functional annotation
General category Regulation
Detailed category Signal transduction

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)biological regulation0.00016490.09071Least InformativeInherited
Biological Process (BP)multicellular organismal process0.000051260.5982Least InformativeInherited
Biological Process (BP)single-organism cellular process0.13520.0166Least InformativeInherited
Biological Process (BP)regulation of localization0.000032360.00003153Moderately InformativeDirect
Biological Process (BP)cell differentiation0.000004651Moderately InformativeInherited
Biological Process (BP)immune system process0.00080730.04346Moderately InformativeInherited
Biological Process (BP)animal organ development0.10841Moderately InformativeInherited
Biological Process (BP)hemopoiesis0.0000033030.0005881InformativeDirect
Biological Process (BP)regulation of vesicle-mediated transport0.000012470.000000005188Highly InformativeDirect
Biological Process (BP)myeloid cell differentiation0.00042610.0001632Highly InformativeDirect
Molecular Function (MF)binding0.044110Least InformativeInherited
Molecular Function (MF)anion binding0.0000010560Moderately InformativeDirect
Molecular Function (MF)phospholipid binding0.000000000011430InformativeDirect
Molecular Function (MF)phosphatidylinositol phosphate binding0.039131Highly InformativeInherited
Cellular Component (CC)cytoplasmic part0.0018570Least InformativeInherited
Cellular Component (CC)endomembrane system0.0000035280Moderately InformativeDirect
Cellular Component (CC)vesicle0.000035470Moderately InformativeDirect
Cellular Component (CC)endosome0.000000000019940InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular component organization or biogenesis 0.00000003062 Least Informative Direct
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.3134 Least Informative Inherited
Biological Process (BP) biological regulation 0.09071 Least Informative Inherited
Biological Process (BP) response to stimulus 0.924 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.5982 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.0166 Least Informative Inherited
Biological Process (BP) regulation of localization 0.00003153 Moderately Informative Direct
Biological Process (BP) regulation of signaling 0.0004535 Moderately Informative Direct
Biological Process (BP) cellular localization 0.0000000000001587 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.00004192 Moderately Informative Direct
Biological Process (BP) organophosphate biosynthetic process 0.0001714 Moderately Informative Direct
Biological Process (BP) lipid metabolic process 0.000848 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 0.5414 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.2604 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.004984 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.9522 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.9644 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.06324 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.8445 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.8527 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.2525 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 0.02278 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) immune system process 0.04346 Moderately Informative Inherited
Biological Process (BP) animal organ development 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.5028 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.839 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.4251 Moderately Informative Inherited
Biological Process (BP) cell communication 0.2862 Moderately Informative Inherited
Biological Process (BP) single organism signaling 0.428 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.08505 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.1737 Moderately Informative Inherited
Biological Process (BP) hemopoiesis 0.0005881 Informative Direct
Biological Process (BP) intracellular transport 0 Informative Direct
Biological Process (BP) protein transport 0 Informative Direct
Biological Process (BP) vesicle-mediated transport 0 Informative Direct
Biological Process (BP) phospholipid metabolic process 0.00000000001394 Informative Direct
Biological Process (BP) glycerolipid metabolic process 0.00000001824 Informative Direct
Biological Process (BP) single-organism membrane organization 0.000002199 Informative Direct
Biological Process (BP) positive regulation of transport 0.0000106 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 0.0006556 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.2172 Informative Inherited
Biological Process (BP) protein localization to organelle 1 Informative Inherited
Biological Process (BP) regulation of protein localization 0.7196 Informative Inherited
Biological Process (BP) regulation of peptide transport 0.9728 Informative Inherited
Biological Process (BP) regulation of secretion 0.6418 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.07509 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.3174 Informative Inherited
Biological Process (BP) response to nitrogen compound 0.1293 Informative Inherited
Biological Process (BP) cell cycle process 0.0924 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.9835 Informative Inherited
Biological Process (BP) response to radiation 0.1978 Informative Inherited
Biological Process (BP) embryo development 0.9408 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.0828 Informative Inherited
Biological Process (BP) organelle assembly 0.05193 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.5046 Informative Inherited
Biological Process (BP) regulation of vesicle-mediated transport 0.000000005188 Highly Informative Direct
Biological Process (BP) myeloid cell differentiation 0.0001632 Highly Informative Direct
Biological Process (BP) vesicle organization 0.0000000000006423 Highly Informative Direct
Biological Process (BP) endomembrane system organization 0.0000001874 Highly Informative Direct
Biological Process (BP) autophagy 0.0000003154 Highly Informative Direct
Biological Process (BP) lysosome organization 0.00000151 Highly Informative Direct
Biological Process (BP) positive regulation of secretion by cell 0.00002452 Highly Informative Direct
Biological Process (BP) organelle fusion 0.0000477 Highly Informative Direct
Biological Process (BP) gastrulation 0.0001702 Highly Informative Direct
Biological Process (BP) cellular component disassembly 0.0001939 Highly Informative Direct
Biological Process (BP) response to peptide hormone 0.0002149 Highly Informative Direct
Biological Process (BP) cytokinesis 0.0002865 Highly Informative Direct
Biological Process (BP) plasma membrane bounded cell projection organization 0.0003247 Highly Informative Direct
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.0009938 Highly Informative Direct
Biological Process (BP) single-organism membrane fusion 0.01418 Highly Informative Inherited
Biological Process (BP) positive regulation of peptide secretion 0.09558 Highly Informative Inherited
Biological Process (BP) positive regulation of protein transport 0.5354 Highly Informative Inherited
Biological Process (BP) regulation of GTPase activity 0.01569 Highly Informative Inherited
Biological Process (BP) positive regulation of hydrolase activity 0.04988 Highly Informative Inherited
Biological Process (BP) Golgi vesicle transport 0.9473 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.06153 Highly Informative Inherited
Biological Process (BP) protein targeting 0.564 Highly Informative Inherited
Biological Process (BP) phagocytosis 0.008578 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) hydrolase activity 0.7003 Least Informative Inherited
Molecular Function (MF) anion binding 0 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.04283 Moderately Informative Inherited
Molecular Function (MF) transporter activity 0.8369 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.005247 Moderately Informative Inherited
Molecular Function (MF) molecular function regulator 0.07921 Moderately Informative Inherited
Molecular Function (MF) phospholipid binding 0 Informative Direct
Molecular Function (MF) enzyme activator activity 0.00009481 Informative Direct
Molecular Function (MF) kinase activity 0.007193 Informative Inherited
Molecular Function (MF) cytoskeletal protein binding 0.5744 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.174 Informative Inherited
Molecular Function (MF) phosphoric diester hydrolase activity 0.0000000000000138 Highly Informative Direct
Molecular Function (MF) lipase activity 0.000000000001753 Highly Informative Direct
Molecular Function (MF) protein transporter activity 0.000000003441 Highly Informative Direct
Molecular Function (MF) phosphatidylinositol phosphate binding 1 Highly Informative Inherited
Cellular Component (CC) cytoplasmic part 0 Least Informative Direct
Cellular Component (CC) membrane 0.00000000000002553 Least Informative Direct
Cellular Component (CC) protein complex 0.000006935 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.342 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) endomembrane system 0 Moderately Informative Direct
Cellular Component (CC) vesicle 0 Moderately Informative Direct
Cellular Component (CC) whole membrane 0 Moderately Informative Direct
Cellular Component (CC) bounding membrane of organelle 0.000000001105 Moderately Informative Direct
Cellular Component (CC) membrane protein complex 0.000000002177 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 0.0004087 Moderately Informative Direct
Cellular Component (CC) intrinsic component of membrane 1 Moderately Informative Inherited
Cellular Component (CC) plasma membrane 1 Moderately Informative Inherited
Cellular Component (CC) vacuole 0.006207 Moderately Informative Inherited
Cellular Component (CC) endosome 0 Informative Direct
Cellular Component (CC) cytoplasmic vesicle part 0 Informative Direct
Cellular Component (CC) extrinsic component of membrane 0.000000000000005967 Informative Direct
Cellular Component (CC) lytic vacuole 0.000000003135 Informative Direct
Cellular Component (CC) side of membrane 0.1933 Informative Inherited
Cellular Component (CC) oxidoreductase complex 0.003133 Informative Inherited
Cellular Component (CC) actin cytoskeleton 0.723 Informative Inherited
Cellular Component (CC) endosome membrane 0 Highly Informative Direct
Cellular Component (CC) extrinsic component of organelle membrane 0.000000000001372 Highly Informative Direct
Cellular Component (CC) extrinsic component of cytoplasmic side of plasma membrane 0.0000001882 Highly Informative Direct
Cellular Component (CC) intrinsic component of plasma membrane 1 Highly Informative Inherited
Cellular Component (CC) endocytic vesicle 1 Highly Informative Inherited
Cellular Component (CC) coated vesicle 1 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on ester bonds0.0000005668Least InformativeDirect
Enzyme Commission (EC)Phosphoric diester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.00009895Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep0.008197Moderately InformativeInherited
Enzyme Commission (EC)Phosphatidylinositol-4-phosphate 3-kinase0Highly InformativeDirect
Enzyme Commission (EC)Phospholipase D0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processProtein transport0Moderately InformativeDirect
Biological processLipid metabolism0.1365Moderately InformativeInherited
Biological processCell cycle0.3498Moderately InformativeInherited
Biological processAutophagy0InformativeDirect
Biological processEndocytosis0InformativeDirect
Biological processLipid degradation0.00000005709InformativeDirect
Biological processMitosis0.000001238InformativeDirect
Biological processExocytosis0.000000151Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
Cellular componentLysosome0.00001112InformativeDirect
Coding sequence diversityAlternative splicing0.0005334Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
DomainSH3 domain0InformativeDirect
Molecular functionLipid-binding0Moderately InformativeDirect
Post-translational modificationGTPase activation0.00000009645InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation0.000005115Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001683 SSF64268 Protein matches
Abstract

The PX (phox) domain [PubMed8931154] occurs in a variety of eukaryotic proteins and have been implicated in highly diverse functions such as cell signalling, vesicular trafficking, protein sorting and lipid modification [PubMed10782093, PubMed11736640, PubMed12461558]. PX domains are important phosphoinositide-binding modules that have varying lipid-binding specificities [PubMed11884510]. The PX domain is approximately 120 residues long [PubMed11373621], and folds into a three-stranded beta-sheet followed by three -helices and a proline-rich region that immediately preceeds a membrane-interaction loop and spans approximately eight hydrophobic and polar residues. The PX domain of p47phox binds to the SH3 domain in the same protein [PubMed11373621]. Phosphorylation of p47(phox), a cytoplasmic activator of the microbicidal phagocyte oxidase (phox), elicits interaction of p47(phox) with phoinositides. The protein phosphorylation-driven conformational change of p47(phox) enables its PX domain to bind to phosphoinositides, the interaction of which plays a crucial role in recruitment of p47(phox) from the cytoplasm to membranes and subsequent activation of the phagocyte oxidase. The lipid-binding activity of this protein is normally suppressed by intramolecular interaction of the PX domain with the C-terminal Src homology 3 (SH3) domain [PubMed12356722].

The PX domain is conserved from yeast to human. A recent multiple alignment of representative PX domain sequences can be found in [PubMed9687503], although showing relatively little sequence conservation, their structure appears to be highly conserved. Although phosphatidylinositol-3-phosphate (PtdIns(3)P) is the primary target of PX domains, binding to phosphatidic acid, phosphatidylinositol-3,4-bisphosphate (PtdIns(3,4)P2), phosphatidylinositol-3,5-bisphosphate (PtdIns(3,5)P2), phosphatidylinositol-4,5-bisphosphate (PtdIns(4,5)P2), and phosphatidylinositol-3,4,5-trisphosphate (PtdIns(3,4,5)P3) has been reported as well. The PX-domain is also a protein-protein interaction domain [PubMed15263065].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 5 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a PX domain domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 5 hidden Markov models representing the PX domain superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]