SUPERFAMILY 1.75 HMM library and genome assignments server

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 (3,124) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 13,116 71,222 34
Proteins 13,020 71,169 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)nitrogen compound metabolic process0.0000064720.00000008608Least InformativeDirect
Biological Process (BP)single-organism metabolic process0.00000000015960Least InformativeDirect
Biological Process (BP)cellular aromatic compound metabolic process10.7821Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0016010.0003385Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process10.5821Least InformativeInherited
Biological Process (BP)biosynthetic process0.087760.008477Least InformativeInherited
Biological Process (BP)heterocycle metabolic process11Least InformativeInherited
Biological Process (BP)response to stimulus0.28061Least InformativeInherited
Biological Process (BP)protein metabolic process11Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process11Least InformativeInherited
Biological Process (BP)cellular amino acid metabolic process0.0000000048760Moderately InformativeDirect
Biological Process (BP)organonitrogen compound biosynthetic process0.0002910.00003455Moderately InformativeDirect
Biological Process (BP)aromatic compound biosynthetic process0.046870.05664Moderately InformativeInherited
Biological Process (BP)cellular nitrogen compound biosynthetic process0.0010790.02369Moderately InformativeInherited
Biological Process (BP)organophosphate metabolic process0.080590.2342Moderately InformativeInherited
Biological Process (BP)phosphate-containing compound metabolic process0.025160.143Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.063790.05537Moderately InformativeInherited
Biological Process (BP)nucleobase-containing small molecule metabolic process0.023870.01862Moderately InformativeInherited
Biological Process (BP)oxidation-reduction process0.057510.1937Moderately InformativeInherited
Biological Process (BP)cellular protein modification process0.14180.7409Moderately InformativeInherited
Biological Process (BP)carbohydrate derivative metabolic process0.52360.7992Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.092320.3254Moderately InformativeInherited
Biological Process (BP)nucleotide biosynthetic process0.000020680.00001225InformativeDirect
Biological Process (BP)energy derivation by oxidation of organic compounds0.000001170.000001932InformativeDirect
Biological Process (BP)ribose phosphate biosynthetic process0.00000013760.0000008027InformativeDirect
Biological Process (BP)purine-containing compound biosynthetic process0.00000096390.0000196InformativeDirect
Biological Process (BP)purine ribonucleoside metabolic process0.0046440.01114InformativeInherited
Biological Process (BP)nucleoside monophosphate metabolic process0.010890.1456InformativeInherited
Biological Process (BP)purine ribonucleotide metabolic process11InformativeInherited
Biological Process (BP)glycosyl compound biosynthetic process0.0026360.00275InformativeInherited
Biological Process (BP)internal protein amino acid acetylation0.0000000057990.00000182Highly InformativeDirect
Biological Process (BP)locomotory behavior0.00000040440.00002707Highly InformativeDirect
Biological Process (BP)aerobic respiration0.00000000000038480.0000000000005809Highly InformativeDirect
Biological Process (BP)nucleoside monophosphate biosynthetic process0.00028220.00001108Highly InformativeDirect
Biological Process (BP)glutamate metabolic process0.75620.5953Highly InformativeInherited
Molecular Function (MF)lyase activity00Moderately InformativeDirect
Molecular Function (MF)isomerase activity0.13470.001178Moderately InformativeInherited
Molecular Function (MF)structural molecule activity0.00019830.001125Moderately InformativeInherited
Molecular Function (MF)hydro-lyase activity0.000000000000001340InformativeDirect
Molecular Function (MF)intramolecular transferase activity0.000068070.00000000007714Highly InformativeDirect
Cellular Component (CC)cytoplasmic part0.0000026120.00001747Least InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.025320.6465Least 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) nitrogen compound metabolic process 0.00000008608 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0003385 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.7821 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.5821 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.008477 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.00003455 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.09005 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.1519 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.05664 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.02369 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.2342 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.143 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.05537 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.01862 Moderately Informative Inherited
Biological Process (BP) oxidation-reduction process 0.1937 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.7409 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.7992 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.3254 Moderately Informative Inherited
Biological Process (BP) nucleotide biosynthetic process 0.00001225 Informative Direct
Biological Process (BP) energy derivation by oxidation of organic compounds 0.000001932 Informative Direct
Biological Process (BP) ribose phosphate biosynthetic process 0.0000008027 Informative Direct
Biological Process (BP) protein oligomerization 0.000002207 Informative Direct
Biological Process (BP) purine-containing compound biosynthetic process 0.0000196 Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 0.8885 Informative Inherited
Biological Process (BP) purine ribonucleoside metabolic process 0.01114 Informative Inherited
Biological Process (BP) secondary metabolic process 0.004899 Informative Inherited
Biological Process (BP) nucleoside monophosphate metabolic process 0.1456 Informative Inherited
Biological Process (BP) carboxylic acid catabolic process 0.7909 Informative Inherited
Biological Process (BP) purine ribonucleotide metabolic process 1 Informative Inherited
Biological Process (BP) glycosyl compound biosynthetic process 0.00275 Informative Inherited
Biological Process (BP) internal protein amino acid acetylation 0.00000182 Highly Informative Direct
Biological Process (BP) locomotory behavior 0.00002707 Highly Informative Direct
Biological Process (BP) aerobic respiration 0.0000000000005809 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate biosynthetic process 0.00001108 Highly Informative Direct
Biological Process (BP) phenylpropanoid metabolic process 0.0000002878 Highly Informative Direct
Biological Process (BP) secondary metabolite biosynthetic process 0.0003692 Highly Informative Direct
Biological Process (BP) protein tetramerization 0.000000002293 Highly Informative Direct
Biological Process (BP) imidazole-containing compound metabolic process 0.00000003703 Highly Informative Direct
Biological Process (BP) glutamate metabolic process 0.5953 Highly Informative Inherited
Molecular Function (MF) lyase activity 0 Moderately Informative Direct
Molecular Function (MF) isomerase activity 0.001178 Moderately Informative Inherited
Molecular Function (MF) structural molecule activity 0.001125 Moderately Informative Inherited
Molecular Function (MF) hydro-lyase activity 0 Informative Direct
Molecular Function (MF) intramolecular transferase activity 0.00000000007714 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.00001747 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.6465 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

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Growth abnormality0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of brain morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Neurodevelopmental abnormality0Moderately InformativeDirect
Phenotypic Abnormality (PA)Intellectual disability0InformativeDirect
Phenotypic Abnormality (PA)Seizures0InformativeDirect
Phenotypic Abnormality (PA)Neurodevelopmental delay0InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)developmental timing variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases1Moderately InformativeInherited
Enzyme Commission (EC)Isomerases1Moderately InformativeInherited
Enzyme Commission (EC)Carbon-nitrogen lyases0InformativeDirect
Enzyme Commission (EC)Intramolecular transferases (mutases)1InformativeInherited
Enzyme Commission (EC)Lyases acting on amides, amidines, etc0Highly InformativeDirect
Enzyme Commission (EC)Ammonia-lyases0.1562Highly InformativeInherited
Enzyme Commission (EC)Intramolecular lyases1Highly InformativeInherited

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 biosynthesis0.00001279InformativeDirect
Biological processArginine biosynthesis0Highly InformativeDirect
Biological processHistidine metabolism0Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Post-translational modificationLyase0Moderately InformativeDirect
Post-translational modificationEye lens protein0.000001179Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)amino-acid metabolism0Least InformativeDirect
UniPathway (UP)carbohydrate metabolism1Least InformativeInherited
UniPathway (UP)aromatic compound metabolism1Least InformativeInherited
UniPathway (UP)proteinogenic amino-acid biosynthesis0Moderately InformativeDirect
UniPathway (UP)amino-acid degradation0Moderately InformativeDirect
UniPathway (UP)aromatic compound biosynthesis0.000007579Moderately InformativeDirect
UniPathway (UP)nitrogen metabolism1Moderately InformativeInherited
UniPathway (UP)nucleotide metabolism1Moderately InformativeInherited
UniPathway (UP)purine metabolism1Moderately InformativeInherited
UniPathway (UP)L-arginine biosynthesis0InformativeDirect
UniPathway (UP)tricarboxylic acid cycle0InformativeDirect
UniPathway (UP)phenylpropanoid biosynthesis0InformativeDirect
UniPathway (UP)L-histidine degradation0Highly InformativeDirect
UniPathway (UP)urea cycle0.000005045Highly InformativeDirect
UniPathway (UP)AMP biosynthesis0.00004838Highly InformativeDirect

Document: UP 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) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · 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 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) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]