SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


Carbamate kinase-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Carbamate kinase-like [ 53632]
Superfamily:   Carbamate kinase-like [ 53633] (3)
Families:   Carbamate kinase [ 53634]
  N-acetyl-l-glutamate kinase [ 75297]
  PyrH-like [ 142721] (3)


Superfamily statistics
Genomes (3,216) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 15,768 86,267 19
Proteins 15,635 85,977 19


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 process0.000020090Least InformativeDirect
Biological Process (BP)organonitrogen compound metabolic process0.50110.0000002235Least InformativeInherited
Biological Process (BP)primary metabolic process0.05360.00132Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0013450.0000000000006293Least InformativeInherited
Biological Process (BP)cellular amino acid metabolic process0.014730Moderately InformativeInherited
Biological Process (BP)glutamine family amino acid metabolic process0.000000093750.0000007329InformativeDirect
Molecular Function (MF)transferase activity0.000000035320Least InformativeDirect
Molecular Function (MF)transferase activity, transferring phosphorus-containing groups0.000000000000035640.000000000506Moderately InformativeDirect
Molecular Function (MF)kinase activity0.093530.0001716InformativeInherited
Molecular Function (MF)nucleobase-containing compound kinase activity0.0016110.02668Highly InformativeInherited
Molecular Function (MF)phosphotransferase activity, phosphate group as acceptor0.000041790.002002Highly 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) biosynthetic process 0.00000000004282 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0000000000006293 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.0000002235 Least Informative Direct
Biological Process (BP) primary metabolic process 0.00132 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.6665 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.8297 Least Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0 Moderately Informative Direct
Biological Process (BP) small molecule biosynthetic process 0.0000000000002452 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.2029 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.3368 Moderately Informative Inherited
Biological Process (BP) glutamine family amino acid metabolic process 0.0000007329 Informative Direct
Biological Process (BP) dicarboxylic acid metabolic process 0.00000001423 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.00000006913 Informative Direct
Biological Process (BP) aspartate family amino acid metabolic process 0.04703 Informative Inherited
Molecular Function (MF) transferase activity 0 Least Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.000000000506 Moderately Informative Direct
Molecular Function (MF) oxidoreductase activity 0.008562 Moderately Informative Inherited
Molecular Function (MF) kinase activity 0.0001716 Informative Direct
Molecular Function (MF) transferase activity, transferring acyl groups 0.2871 Informative Inherited
Molecular Function (MF) acetyltransferase activity 0.000000003825 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor 0.00000003302 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the aldehyde or oxo group of donors 0.000004587 Highly Informative Direct
Molecular Function (MF) nucleobase-containing compound kinase activity 0.02668 Highly Informative Inherited
Molecular Function (MF) phosphotransferase activity, phosphate group as acceptor 0.002002 Highly Informative Inherited
Cellular Component (CC) intracellular organelle part 0.8557 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.706 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.02609 Least Informative Inherited
Cellular Component (CC) plastid 0.000005067 Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0.06739Moderately InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor1Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with a phosphate group as acce0InformativeDirect
Enzyme Commission (EC)Phosphotransferases with a carboxyl group as accep0InformativeDirect
Enzyme Commission (EC)Amino-acid N-acetyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Glutamate 5-kinase0Highly InformativeDirect
Enzyme Commission (EC)Homoserine dehydrogenase0Highly InformativeDirect
Enzyme Commission (EC)Aspartate kinase0.00000914Highly 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 processArginine biosynthesis0Highly InformativeDirect
Biological processArginine metabolism0Highly InformativeDirect
Biological processPyrimidine biosynthesis0Highly InformativeDirect
Biological processDiaminopimelate biosynthesis0.000009746Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Coding sequence diversityAlternative initiation0.00001801Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationKinase0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001048 SSF53633 Protein matches
Abstract

This entry contains proteins with various specificities and includes the aspartate, glutamate and uridylate kinase families. In prokaryotes and plants the synthesis of the essential amino acids lysine and threonine is predominantly regulated by feed-back inhibition of aspartate kinase (AK) and dihydrodipicolinate synthase (DHPS). In Escherichia coli, thrA, metLM, and lysC encode aspartokinase isozymes that show feedback inhibition by threonine, methionine, and lysine, respectively [PubMed10220897]. The lysine-sensitive isoenzyme of aspartate kinase from spinach leaves has a subunit composition of 4 large and 4 small subunits [PubMed9584993].

In plants although the control of carbon fixation and nitrogen assimilation has been studied in detail, relatively little is known about the regulation of carbon and nitrogen flow into amino acids. The metabolic regulation of expression of an Arabidopsis thaliana aspartate kinase/homoserine dehydrogenase (AK/HSD) gene, which encodes two linked key enzymes in the biosynthetic pathway of aspartate family amino acids has been studied [PubMed9501134]. The conversion of aspartate into either the storage amino acid asparagine or aspartate family amino acids may be subject to a coordinated, reciprocal metabolic control, and this biochemical branch point is a part of a larger, coordinated regulatory mechanism of nitrogen and carbon storage and utilization.


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 16 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 Carbamate kinase-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 16 hidden Markov models representing the Carbamate kinase-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 ]