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Lipase/lipooxygenase domain (PLAT/LH2 domain) superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Lipase/lipooxygenase domain (PLAT/LH2 domain) [ 49722]
Superfamily:   Lipase/lipooxygenase domain (PLAT/LH2 domain) [ 49723] (3)
Families:   Lipoxigenase N-terminal domain [ 49724] (2)
  Colipase-binding domain [ 49730]
  Alpha-toxin, C-terminal domain [ 49738]

 Superfamily statistics
Genomes (220) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 5,232 4,491 24
Proteins 3,314 3,040 24

 Functional annotation
General category Metabolism
Detailed category Lipid metabolism and transport

Document: Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) multicellular organismal process 7.547e-06 Least Informative Direct
Biological Process (BP) single-organism metabolic process 1.238e-12 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.004008 Least Informative Inherited
Biological Process (BP) response to stimulus 0.002065 Least Informative Inherited
Biological Process (BP) localization 0.705 Least Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular lipid metabolic process 0 Moderately Informative Direct
Biological Process (BP) small molecule biosynthetic process 3.043e-06 Moderately Informative Direct
Biological Process (BP) homeostatic process 0.01374 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.4838 Moderately Informative Inherited
Biological Process (BP) oxidation-reduction process 0.0846 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.3084 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.2176 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.161 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.02714 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.05239 Moderately Informative Inherited
Biological Process (BP) lipid biosynthetic process 0.005219 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.05883 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.02959 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.02619 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.003295 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.01531 Moderately Informative Inherited
Biological Process (BP) system process 0.3108 Moderately Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.0001883 Informative Direct
Biological Process (BP) lipid transport 2.198e-05 Informative Direct
Biological Process (BP) response to wounding 1.408e-12 Informative Direct
Biological Process (BP) lipid catabolic process 7.583e-07 Informative Direct
Biological Process (BP) response to lipid 0.0004852 Informative Direct
Biological Process (BP) organophosphate catabolic process 7.676e-06 Informative Direct
Biological Process (BP) monocarboxylic acid biosynthetic process 1.129e-08 Informative Direct
Biological Process (BP) glycerolipid metabolic process 0.8204 Informative Inherited
Biological Process (BP) carbohydrate derivative catabolic process 0.007612 Informative Inherited
Biological Process (BP) membrane lipid metabolic process 0.4085 Informative Inherited
Biological Process (BP) fatty acid metabolic process 0.005326 Informative Inherited
Biological Process (BP) response to external stimulus 0.2519 Informative Inherited
Biological Process (BP) defense response 0.1173 Informative Inherited
Biological Process (BP) acylglycerol metabolic process 2.44e-10 Highly Informative Direct
Biological Process (BP) digestion 5.298e-06 Highly Informative Direct
Biological Process (BP) sensory perception 2.786e-07 Highly Informative Direct
Biological Process (BP) organic hydroxy compound transport 2.072e-06 Highly Informative Direct
Biological Process (BP) unsaturated fatty acid metabolic process 6.351e-06 Highly Informative Direct
Biological Process (BP) negative regulation of cell cycle 1.297e-06 Highly Informative Direct
Biological Process (BP) icosanoid biosynthetic process 8.307e-06 Highly Informative Direct
Biological Process (BP) lipid homeostasis 0.0001034 Highly Informative Direct
Biological Process (BP) lipid modification 0.02815 Highly Informative Inherited
Biological Process (BP) inflammatory response 0.01993 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 6.589e-06 Least Informative Direct
Molecular Function (MF) binding 0.001324 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 9.542e-06 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 2.333e-15 Moderately Informative Direct
Molecular Function (MF) cation binding 0.0006741 Moderately Informative Direct
Molecular Function (MF) transporter activity 0.3409 Moderately Informative Inherited
Molecular Function (MF) enzyme regulator activity 0.0634 Moderately Informative Inherited
Molecular Function (MF) GTPase regulator activity 0.0008256 Informative Direct
Molecular Function (MF) small GTPase regulator activity 7.068e-05 Highly Informative Direct
Molecular Function (MF) guanyl-nucleotide exchange factor activity 2.017e-05 Highly Informative Direct
Molecular Function (MF) calcium ion binding 0.0001223 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on single donors with incorporation of molecular oxygen 0 Highly Informative Direct
Molecular Function (MF) dioxygenase activity 0 Highly Informative Direct
Molecular Function (MF) carboxylic ester hydrolase activity 0 Highly Informative Direct
Molecular Function (MF) ion channel activity 0.002272 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.9268 Least Informative Inherited
Cellular Component (CC) extracellular region 1.166e-06 Moderately Informative Direct
Cellular Component (CC) cell projection 0.005761 Moderately Informative Inherited
Cellular Component (CC) extracellular space 3.451e-11 Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Carboxylic ester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric diester hydrolases0.003134Moderately InformativeInherited
Enzyme Commission (EC)Acting on single donors with incorporation of mole0InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)benign neoplasm0.002872Moderately InformativeInherited
Disease Ontology (DO)vascular disease0.003366Moderately InformativeInherited
Disease Ontology (DO)heart disease0.1847Moderately InformativeInherited
Disease Ontology (DO)atherosclerosis0.0001007InformativeDirect
Disease Ontology (DO)myocardial infarction0.000521InformativeDirect
Disease Ontology (DO)adenoma0.0009533InformativeDirect

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0.02378Least InformativeInherited
Mammalian Phenotype (MP)abnormal lipid level0.6712Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cholesterol level3.501e-05InformativeDirect
Mammalian Phenotype (MP)abnormal circulating lipoprotein level0.0007172InformativeDirect
Mammalian Phenotype (MP)abnormal circulating lipid level0.001072InformativeInherited
Mammalian Phenotype (MP)abnormal circulating phospholipid level0.0003043Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details) Document: WP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)megasporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)gynoecium0Least InformativeDirect
Plant ANatomical entity (PAN)collective leaf structure0Least InformativeDirect
Plant ANatomical entity (PAN)portion of meristem tissue0.7259Least InformativeInherited
Plant ANatomical entity (PAN)root0.8064Least InformativeInherited
Plant ANatomical entity (PAN)primordium4.295e-05InformativeDirect
Plant ANatomical entity (PAN)lateral root primordium8.183e-07Highly InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Hydrolases3.333e-06Least InformativeDirect
Enzyme Commission (EC)Carboxylic ester hydrolases0InformativeDirect
Enzyme Commission (EC)Phosphoric diester hydrolases0.003139InformativeInherited
Enzyme Commission (EC)With incorporation of two atoms of oxygen0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processLipid metabolism0Moderately InformativeDirect
Biological processCytolysis3.152e-10InformativeDirect
Biological processLipid biosynthesis1InformativeInherited
Biological processHemolysis2.041e-12Highly InformativeDirect
Biological processLipid degradation2.096e-10Highly InformativeDirect
Cellular componentMembrane0.3497Least InformativeInherited
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentCell projection0.0002694Moderately InformativeDirect
Cellular componentPlastid0.004639Moderately InformativeInherited
Cellular componentGPI-anchor6.25e-15InformativeDirect
Cellular componentChloroplast7.334e-05Highly InformativeDirect
Coding sequence diversityPolymorphism1.516e-05Moderately InformativeDirect
DomainSignal4.397e-15Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Molecular functionHeparin-binding0InformativeDirect
Molecular functionLectin6.895e-06InformativeDirect
Post-translational modificationHydrolase4.814e-06Least InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor9.933e-08InformativeDirect
Post-translational modificationIon channel0.0001377InformativeDirect
Post-translational modificationToxin0.0001928InformativeDirect
Post-translational modificationDioxygenase0Highly InformativeDirect
Post-translational modificationGlycoprotein5.229e-11Least InformativeDirect
Post-translational modificationDisulfide bond6.612e-08Least InformativeDirect
Post-translational modificationNitration0Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)lipid metabolism0Least InformativeDirect
UniPathway (UP)fatty acid metabolism0Moderately InformativeDirect
UniPathway (UP)oxylipin biosynthesis0Highly InformativeDirect
UniPathway (UP)leukotriene biosynthesis0Highly InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR008976 SSF49723 Protein matches
Abstract

This entry represents a domain found in lipoxygenases and other enzymes. It is known as the PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology) domain, is found in a variety of membrane or lipid associated proteins. Structurally, this domain forms a beta-sandwich composed of two sheets of four strands each [PubMed10469604, PubMed11985859, PubMed11412104]. The most highly conserved regions coincide with the beta-strands, with most of the highly conserved residues being buried within the protein. An exception to this is a surface lysine or arginine that occurs on the surface of the fifth beta-strand of the eukaryotic domains. In pancreatic lipase, the lysine in this position forms a salt bridge with the procolipase protein. The conservation of a charged surface residue may indicate the location of a conserved ligand-binding site. It is thought that this domain may mediate membrane attachment via other protein binding partners.


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-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 11 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 Lipase/lipooxygenase domain (PLAT/LH2 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 11 hidden Markov models representing the Lipase/lipooxygenase domain (PLAT/LH2 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-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]
Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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© Copyright 2013 The SUPERFAMILY authors and Julian Gough.