SUPERFAMILY 1.75 HMM library and genome assignments server

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L-aspartase-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   L-aspartase-like [ 48556]
Superfamily:   L-aspartase-like [ 48557] (2)
Families:   L-aspartase/fumarase [ 48558] (5)
  HAL/PAL-like [ 48572] (2)


Superfamily statistics
Genomes (3,132) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 13,178 77,402 34
Proteins 13,081 77,229 34


Functional annotation
General category Metabolism
Detailed category Amino acids metabolism and transport

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 process00Least InformativeDirect
Biological Process (BP)single-organism cellular process0.00000075620.000000004075Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process0.91240.2472Least InformativeInherited
Biological Process (BP)biosynthetic process0.46480.06567Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process0.85650.9378Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.76160.223Least InformativeInherited
Biological Process (BP)heterocycle metabolic process11Least InformativeInherited
Biological Process (BP)primary metabolic process0.074510.5815Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.29690.08999Least InformativeInherited
Biological Process (BP)generation of precursor metabolites and energy0.000000026010.0000001616Moderately InformativeDirect
Biological Process (BP)cellular amino acid metabolic process0.0000030450Moderately InformativeDirect
Biological Process (BP)nucleoside phosphate metabolic process0.000000032640.00000004605Moderately InformativeDirect
Biological Process (BP)purine-containing compound metabolic process0.000011350.00001268Moderately InformativeDirect
Biological Process (BP)aromatic compound biosynthetic process0.13310.04734Moderately InformativeInherited
Biological Process (BP)carbohydrate derivative metabolic process0.54410.5223Moderately InformativeInherited
Biological Process (BP)organophosphate biosynthetic process0.0013890.003958Moderately InformativeInherited
Biological Process (BP)oxidation-reduction process0.00019060.01059Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.18760.5229Moderately InformativeInherited
Biological Process (BP)small molecule biosynthetic process11Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.22050.05997Moderately InformativeInherited
Biological Process (BP)cellular respiration00InformativeDirect
Biological Process (BP)ribose phosphate biosynthetic process0.000000034860.0000001338InformativeDirect
Biological Process (BP)purine-containing compound biosynthetic process0.0000025860.00002806InformativeDirect
Biological Process (BP)nucleotide biosynthetic process0.0040380.006103InformativeInherited
Biological Process (BP)glutamine family amino acid metabolic process0.0000075760.008319InformativeInherited
Biological Process (BP)alpha-amino acid biosynthetic process0.23310.9435InformativeInherited
Biological Process (BP)dicarboxylic acid metabolic process0.0049540.0318InformativeInherited
Biological Process (BP)arginine metabolic process0.00021750.00002329Highly InformativeDirect
Biological Process (BP)aerobic respiration00Highly InformativeDirect
Biological Process (BP)purine ribonucleoside monophosphate biosynthetic process0.00000000014230.000000003382Highly InformativeDirect
Biological Process (BP)citrate metabolic process0.0083610.1981Highly InformativeInherited
Molecular Function (MF)lyase activity00Moderately InformativeDirect
Molecular Function (MF)isomerase activity0.025210.0001496Moderately InformativeInherited
Molecular Function (MF)structural molecule activity0.0020620.006448Moderately InformativeInherited
Molecular Function (MF)hydro-lyase activity00InformativeDirect
Molecular Function (MF)intramolecular transferase activity0.039910.0008413Highly InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.045511Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.000015750.00239Least InformativeInherited

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 0.000000004075 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.2472 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.06567 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.9378 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.5815 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.223 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.08999 Least Informative Inherited
Biological Process (BP) generation of precursor metabolites and energy 0.0000001616 Moderately Informative Direct
Biological Process (BP) cellular amino acid metabolic process 0 Moderately Informative Direct
Biological Process (BP) nucleoside phosphate metabolic process 0.00000004605 Moderately Informative Direct
Biological Process (BP) purine-containing compound metabolic process 0.00001268 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.04734 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.7944 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 0.2413 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.03383 Moderately Informative Inherited
Biological Process (BP) protein complex biogenesis 0.002314 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.5223 Moderately Informative Inherited
Biological Process (BP) organophosphate biosynthetic process 0.003958 Moderately Informative Inherited
Biological Process (BP) oxidation-reduction process 0.01059 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.5229 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.9262 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.05997 Moderately Informative Inherited
Biological Process (BP) cellular respiration 0 Informative Direct
Biological Process (BP) ribose phosphate biosynthetic process 0.0000001338 Informative Direct
Biological Process (BP) protein oligomerization 0.00003003 Informative Direct
Biological Process (BP) purine-containing compound biosynthetic process 0.00002806 Informative Direct
Biological Process (BP) secondary metabolic process 0.003023 Informative Inherited
Biological Process (BP) nucleotide biosynthetic process 0.006103 Informative Inherited
Biological Process (BP) glutamine family amino acid metabolic process 0.008319 Informative Inherited
Biological Process (BP) alpha-amino acid biosynthetic process 0.9435 Informative Inherited
Biological Process (BP) carboxylic acid catabolic process 0.9909 Informative Inherited
Biological Process (BP) dicarboxylic acid metabolic process 0.0318 Informative Inherited
Biological Process (BP) arginine metabolic process 0.00002329 Highly Informative Direct
Biological Process (BP) aerobic respiration 0 Highly Informative Direct
Biological Process (BP) purine ribonucleoside monophosphate biosynthetic process 0.000000003382 Highly Informative Direct
Biological Process (BP) phenylpropanoid metabolic process 0.00000001599 Highly Informative Direct
Biological Process (BP) secondary metabolite biosynthetic process 0.0002347 Highly Informative Direct
Biological Process (BP) imidazole-containing compound metabolic process 0.00000002123 Highly Informative Direct
Biological Process (BP) citrate metabolic process 0.1981 Highly Informative Inherited
Molecular Function (MF) lyase activity 0 Moderately Informative Direct
Molecular Function (MF) isomerase activity 0.0001496 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0.006448 Moderately Informative Inherited
Molecular Function (MF) hydro-lyase activity 0 Informative Direct
Molecular Function (MF) intramolecular transferase activity 0.0008413 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.00239 Least Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Hydro-lyases0Moderately InformativeDirect
Enzyme Commission (EC)Carbon-nitrogen lyases0InformativeDirect
Enzyme Commission (EC)Lyases acting on amides, amidines, etc0.000000000001741Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAmino-acid biosynthesis0Moderately InformativeDirect
Biological processTricarboxylic acid cycle0InformativeDirect
Biological processPurine biosynthesis0.000008557InformativeDirect
Biological processArginine biosynthesis0Highly InformativeDirect
Biological processHistidine metabolism0Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Post-translational modificationLyase0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR008948 SSF48557 Protein matches
Abstract

The enzyme L-aspartate ammonia-lyase (aspartase) catalyses the reversible deamination of the amino acid L-aspartic acid, using a carbanion mechanism to produce fumaric acid and ammonium ion. Aspartases from different organisms show high sequence homology, and this homology extends to functionally related enzymes such as the class II fumarases, the argininosuccinate and adenylosuccinate lyases. The high-resolution structure of aspartase reveals a monomer that is composed of three domains oriented in an elongated S-shape [PubMed9230045]. The central domain, comprised of five-helices, provides the subunit contacts in the functionally active tetramer. The active sites are located in clefts between the subunits and structural and mutagenic studies have identified several of the active site functional groups. A separate regulatory site has been identified. The substrate, aspartic acid, can also play the role of an activator, binding at this site along with a required divalent metal ion.


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 18 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 L-aspartase-like 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 18 hidden Markov models representing the L-aspartase-like 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 ]