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Aspartate/ornithine carbamoyltransferase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   ATC-like [ 53670] (2)
Superfamily:   Aspartate/ornithine carbamoyltransferase [ 53671]
Families:   Aspartate/ornithine carbamoyltransferase [ 53672] (3)


Superfamily statistics
Genomes (2,984) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 6,463 37,051 28
Proteins 6,444 36,966 28


Functional annotation
General category Metabolism
Detailed category Amino acids 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) cellular aromatic compound metabolic process 0.000965 Least Informative Direct
Biological Process (BP) biosynthetic process 0.00000000000075 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.00003698 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0000000001168 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.000002686 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.0008028 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.000000000000003734 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.273 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.3009 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.002017 Least Informative Inherited
Biological Process (BP) biological regulation 0.7686 Least Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.0000000000006812 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.0000000609 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.0000003306 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 0.05681 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.01827 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.0278 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.126 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.01792 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 0.169 Moderately Informative Inherited
Biological Process (BP) animal organ development 0.004865 Moderately Informative Inherited
Biological Process (BP) central nervous system development 0.0003989 Informative Direct
Biological Process (BP) glutamine family amino acid metabolic process 0.00000009708 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.0004814 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.0004649 Informative Direct
Biological Process (BP) circulatory system development 0.00002931 Informative Direct
Biological Process (BP) pyrimidine-containing compound biosynthetic process 0 Informative Direct
Biological Process (BP) cell development 0.01362 Informative Inherited
Biological Process (BP) generation of neurons 0.003028 Informative Inherited
Biological Process (BP) alpha-amino acid biosynthetic process 0.1231 Informative Inherited
Biological Process (BP) nucleobase metabolic process 0 Highly Informative Direct
Biological Process (BP) camera-type eye development 0.000000151 Highly Informative Direct
Biological Process (BP) neuron development 0.0001996 Highly Informative Direct
Biological Process (BP) regulation of cellular response to growth factor stimulus 0.00000001709 Highly Informative Direct
Biological Process (BP) plasma membrane bounded cell projection organization 0.0003149 Highly Informative Direct
Biological Process (BP) arginine metabolic process 0.1032 Highly Informative Inherited
Molecular Function (MF) transferase activity 0.00000001678 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.7615 Least Informative Inherited
Molecular Function (MF) transferase activity, transferring one-carbon groups 0 Informative Direct
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds 0.0000000007244 Informative Direct
Molecular Function (MF) ligase activity 0.0000003887 Informative Direct
Cellular Component (CC) intracellular organelle part 0.03101 Least Informative Inherited
Cellular Component (CC) membrane 0.3211 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.06777 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.006761 Least Informative Inherited
Cellular Component (CC) organelle inner membrane 0.0000265 Moderately Informative Direct
Cellular Component (CC) mitochondrial envelope 0.05387 Moderately Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring one-carbon groups0Least InformativeDirect
Enzyme Commission (EC)Ligases1Least InformativeInherited
Enzyme Commission (EC)Forming carbon-nitrogen bonds1Moderately InformativeInherited
Enzyme Commission (EC)Carbon--nitrogen ligases with glutamine as amido-N0.5347InformativeInherited
Enzyme Commission (EC)Carboxyl- and carbamoyltransferases0Highly InformativeDirect
Enzyme Commission (EC)Carbamoyl-phosphate synthase (glutamine-hydrolyzin0.0008941Highly 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 processPyrimidine biosynthesis0Highly InformativeDirect
Biological processArginine biosynthesis0Highly InformativeDirect
Biological processArginine metabolism0Highly InformativeDirect
Biological processPolyamine biosynthesis0.000001471Highly InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR006130 SSF53671 Protein matches
Abstract

This family contains two related enzymes:

  1. Aspartate carbamoyltransferase (ATCase) catalyzes the conversion of aspartate and carbamoyl phosphate to carbamoylaspartate, the second step in the de novo biosynthesis of pyrimidine nucleotides [PubMed3015959]. In prokaryotes ATCase consists of two subunits: a catalytic chain (gene pyrB) and a regulatory chain (gene pyrI), while in eukaryotes it is a domain in a multi- functional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals [PubMed8098212]) that also catalyzes other steps of the biosynthesis of pyrimidines.
  2. Ornithine carbamoyltransferase (OTCase) catalyzes the conversion of ornithine and carbamoyl phosphate to citrulline. In mammals this enzyme participates in the urea cycle [PubMed2662961] and is located in the mitochondrial matrix. In prokaryotes and eukaryotic microorganisms it is involved in the biosynthesis of arginine. In some bacterial species it is also involved in the degradation of arginine [PubMed3109911] (the arginine deaminase pathway).
It has been shown [PubMed6379651] that these two enzymes are evolutionary related. The predicted secondary structure of both enzymes are similar and there are some regions of sequence similarities. One of these regions includes three residues which have been shown, by crystallographic studies [PubMed6377306], to be implicated in binding the phosphoryl group of carbamoyl phosphate.


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) · 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 20 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 Aspartate/ornithine carbamoyltransferase 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 20 hidden Markov models representing the Aspartate/ornithine carbamoyltransferase 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) · UniProtKB KeyWords (KW) · Internal database links ]