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Acid phosphatase/Vanadium-dependent haloperoxidase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Acid phosphatase/Vanadium-dependent haloperoxidase [ 48316]
Superfamily:   Acid phosphatase/Vanadium-dependent haloperoxidase [ 48317] (3)
Families:   Type 2 phosphatidic acid phosphatase, PAP2 [ 48318]
  Haloperoxidase (bromoperoxidase) [ 48321]
  Chloroperoxidase [ 48325]


Superfamily statistics
Genomes (2,764) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 11,590 58,844 11
Proteins 11,512 58,534 11


Functional annotation
General category Metabolism
Detailed category Redox

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)single-organism metabolic process0.000000000011760Least InformativeDirect
Biological Process (BP)single-organism cellular process0.00000017690.00003362Least InformativeDirect
Biological Process (BP)biosynthetic process0.038080.0102Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)primary metabolic process0.0027460.0537Least InformativeInherited
Biological Process (BP)lipid metabolic process00Moderately InformativeDirect
Biological Process (BP)carbohydrate derivative metabolic process0.028790.004071Moderately InformativeInherited
Biological Process (BP)carbohydrate metabolic process0.094020.03673Moderately InformativeInherited
Biological Process (BP)organophosphate biosynthetic process0.47590.3011Moderately InformativeInherited
Biological Process (BP)reproduction0.077960.6402Moderately InformativeInherited
Biological Process (BP)multi-organism process0.22020.6729Moderately InformativeInherited
Biological Process (BP)membrane lipid metabolic process0.000027550.00001323InformativeDirect
Biological Process (BP)phospholipid metabolic process0.00000000062270.00000000305InformativeDirect
Biological Process (BP)dephosphorylation0.0000000031770.00000000003135InformativeDirect
Biological Process (BP)carbohydrate biosynthetic process0.0022680.0003281InformativeInherited
Biological Process (BP)glycerolipid metabolic process0.73011InformativeInherited
Biological Process (BP)liposaccharide metabolic process0.31920.06321InformativeInherited
Biological Process (BP)movement of cell or subcellular component0.29440.8455InformativeInherited
Biological Process (BP)multicellular organism reproduction0.0043850.1158InformativeInherited
Biological Process (BP)locomotion0.018420.2695InformativeInherited
Biological Process (BP)single organism reproductive process0.096850.5883InformativeInherited
Biological Process (BP)multi-organism reproductive process0.0036990.1198InformativeInherited
Biological Process (BP)sphingolipid biosynthetic process0.00000000000068060.00000000003851Highly InformativeDirect
Biological Process (BP)lipid modification0.01070.1706Highly InformativeInherited
Biological Process (BP)oligosaccharide biosynthetic process0.0073260.001729Highly InformativeInherited
Biological Process (BP)glycolipid biosynthetic process0.044160.005379Highly InformativeInherited
Biological Process (BP)lipid A metabolic process0.025030.0006446Highly InformativeInherited
Molecular Function (MF)hydrolase activity00Least InformativeDirect
Molecular Function (MF)hydrolase activity, acting on ester bonds00Moderately InformativeDirect
Molecular Function (MF)phosphatase activity00InformativeDirect
Molecular Function (MF)sugar-phosphatase activity0.00000000000000340Highly InformativeDirect
Cellular Component (CC)membrane0.000000000070550.00000005729Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.21990.9418Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.085530.8267Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.62980.8452Least InformativeInherited
Cellular Component (CC)endoplasmic reticulum0.000000000039150.0000000005243Moderately InformativeDirect
Cellular Component (CC)endoplasmic reticulum membrane0.000016950.000009155InformativeDirect

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) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.00003362 Least Informative Direct
Biological Process (BP) biosynthetic process 0.0102 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.0537 Least Informative Inherited
Biological Process (BP) lipid metabolic process 0 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.004071 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.03673 Moderately Informative Inherited
Biological Process (BP) organophosphate biosynthetic process 0.3011 Moderately Informative Inherited
Biological Process (BP) reproduction 0.6402 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.6729 Moderately Informative Inherited
Biological Process (BP) membrane lipid metabolic process 0.00001323 Informative Direct
Biological Process (BP) phospholipid metabolic process 0.00000000305 Informative Direct
Biological Process (BP) carbohydrate biosynthetic process 0.0003281 Informative Direct
Biological Process (BP) dephosphorylation 0.00000000003135 Informative Direct
Biological Process (BP) liposaccharide metabolic process 0.06321 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.8455 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.1158 Informative Inherited
Biological Process (BP) locomotion 0.2695 Informative Inherited
Biological Process (BP) single organism reproductive process 0.5883 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.1198 Informative Inherited
Biological Process (BP) glycerolipid metabolic process 1 Informative Inherited
Biological Process (BP) sphingolipid biosynthetic process 0.00000000003851 Highly Informative Direct
Biological Process (BP) lipid A metabolic process 0.0006446 Highly Informative Direct
Biological Process (BP) lipid modification 0.1706 Highly Informative Inherited
Biological Process (BP) oligosaccharide biosynthetic process 0.001729 Highly Informative Inherited
Biological Process (BP) glycolipid biosynthetic process 0.005379 Highly Informative Inherited
Biological Process (BP) neutral lipid metabolic process 0.1338 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0 Moderately Informative Direct
Molecular Function (MF) phosphatase activity 0 Informative Direct
Molecular Function (MF) sugar-phosphatase activity 0 Highly Informative Direct
Cellular Component (CC) membrane 0.00000005729 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.9418 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.8267 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.8452 Least Informative Inherited
Cellular Component (CC) endoplasmic reticulum 0.0000000005243 Moderately Informative Direct
Cellular Component (CC) endoplasmic reticulum membrane 0.000009155 Informative Direct

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 bonds0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides1Least InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)In phosphorous-containing anhydrides0.000000000001906Moderately InformativeDirect

Document: EC annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)general pace of development variant0Least InformativeDirect
Worm Phenotype (WP)larval lethal0Least InformativeDirect
Worm Phenotype (WP)retarded heterochronic variations0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval growth variant0Least InformativeDirect
Worm Phenotype (WP)sterile progeny0Moderately InformativeDirect

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus DEvelopment stage (XDE)embryonic stage0.1408Least InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage0.1934Least InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 200.00001099Highly InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.8137Moderately InformativeInherited
Enzyme Commission (EC)In phosphorus-containing anhydrides0.000000000000003889InformativeDirect
Enzyme Commission (EC)Acting on a peroxide as acceptor0.00007567InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processLipid metabolism0.0000000004453Moderately InformativeDirect
Biological processVirulence0.00003787Moderately InformativeDirect
Biological processAntibiotic resistance4.844e-16InformativeDirect
Biological processLipid biosynthesis0.9671InformativeInherited
Biological processGluconeogenesis0Highly InformativeDirect
Biological processLipopolysaccharide biosynthesis9.633e-16Highly InformativeDirect
Biological processLipid A biosynthesis0.00000000002244Highly InformativeDirect
Biological processSphingolipid metabolism0.00000003444Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentPeriplasm0.0002851InformativeDirect
DomainTransmembrane0Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationGlycoprotein0.00000000000005605Least InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0.0000000001078Least InformativeDirect
UniPathway (UP)carbohydrate metabolism0.00001437Least InformativeDirect
UniPathway (UP)lipid metabolism0.00001897Least InformativeDirect
UniPathway (UP)carbohydrate biosynthesis0Moderately InformativeDirect
UniPathway (UP)cellular component biogenesis0.0000004549Moderately InformativeDirect
UniPathway (UP)membrane lipid metabolism0.00007545Moderately InformativeDirect
UniPathway (UP)biopolymer biosynthesis0.01715Moderately InformativeInherited
UniPathway (UP)lipid biosynthesis0.1335Moderately InformativeInherited
UniPathway (UP)gluconeogenesis0InformativeDirect
UniPathway (UP)protein glycosylation0.00000000000003894InformativeDirect
UniPathway (UP)lipopolysaccharide biosynthesis0.0000000009373InformativeDirect
UniPathway (UP)glycolipid biosynthesis1InformativeInherited
UniPathway (UP)LPS lipid A biosynthesis0.00000006062Highly InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR000326 SSF48317 Protein matches
Abstract

This entry represents type 2 phosphatidic acid phosphatase (PAP2) enzymes, such as phosphatidylglycerophosphatase B from Escherichia coli. PAP2 enzymes have a core structure consisting of a 5-helical bundle, where the beginning of the third helix binds the cofactor [PubMed10835340]. PAP2 enzymes catalyse the dephosphorylation of phosphatidate, yielding diacylglycerol and inorganic phosphate. In eukaryotic cells, PAP activity has a central role in the synthesis of phospholipids and triacylglycerol through its product diacylglycerol, and it also generates and/or degrades lipid-signaling molecules that are related to phosphatidate.

Other related enzymes have a similar core structure, including haloperoxidases such as bromoperoxidase (contains one core bundle, but forms a dimer), chloroperoxidases (contains two core bundles arranged as in other family dimers), bacitracin transport permease from Bacillus licheniformis, glucose-6-phosphatase from rat. The vanadium-dependent haloperoxidases exclusively catalyse the oxidation of halides, and act as histidine phosphatases, using histidine for the nucleophilic attack in the first step of the reaction [PubMed12447906]. Amino acid residues involved in binding phosphate/vanadate are conserved between the two families, supporting a proposal that vanadium passes through a tetrahedral intermediate during the reaction mechanism.


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) · Worm Phenotype (WP) · Fly Anatomy (FA) · 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 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 Acid phosphatase/Vanadium-dependent haloperoxidase 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 Acid phosphatase/Vanadium-dependent haloperoxidase 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) · Worm Phenotype (WP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]