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Trimeric LpxA-like enzymes superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Single-stranded left-handed beta-helix [ 51160] (4)
Superfamily:   Trimeric LpxA-like enzymes [ 51161] (8)
Families:   UDP N-acetylglucosamine acyltransferase [ 51162]
  Tetrahydrodipicolinate-N-succinlytransferase, THDP-succinlytransferase, DapD [ 51165]
  Galactoside acetyltransferase-like [ 51168] (3)
  GlmU C-terminal domain-like [ 51171] (3)
  gamma-carbonic anhydrase-like [ 51174] (3)
  Serine acetyltransferase [ 110309]
  YdcK-like [ 141583]
  PglD-like [ 159280]


Superfamily statistics
Genomes (3,164) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 27,251 160,015 29
Proteins 26,199 154,647 29


Functional annotation
General category Metabolism
Detailed category Other enzymes

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)cellular component organization or biogenesis0.28521Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.47680.000008709Least InformativeInherited
Biological Process (BP)single-organism cellular process0.70340.1951Least InformativeInherited
Biological Process (BP)biosynthetic process0.17320.000000000545Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.82741Least InformativeInherited
Biological Process (BP)primary metabolic process0.92140.8643Least InformativeInherited
Biological Process (BP)macromolecular complex subunit organization0.0022530.02611Moderately InformativeInherited
Biological Process (BP)protein complex biogenesis0.00026310.001021Moderately InformativeInherited
Biological Process (BP)cellular component assembly0.014180.2554Moderately InformativeInherited
Biological Process (BP)sulfur compound metabolic process0.026630.002445Moderately InformativeInherited
Biological Process (BP)cellular amino acid metabolic process0.0056780.0001718Moderately InformativeInherited
Biological Process (BP)small molecule biosynthetic process0.021060.07298Moderately InformativeInherited
Biological Process (BP)protein oligomerization0.0000059780.000004781InformativeDirect
Biological Process (BP)cellular metabolic compound salvage0.00008170.00001114InformativeDirect
Biological Process (BP)alpha-amino acid biosynthetic process0.0061130.00008722InformativeInherited
Biological Process (BP)microtubule-based process0.000021920.009883InformativeInherited
Biological Process (BP)movement of cell or subcellular component0.029530.7556InformativeInherited
Biological Process (BP)sulfur compound biosynthetic process0.0016160.01957InformativeInherited
Biological Process (BP)protein homotrimerization0.0000068370.00000431Highly InformativeDirect
Biological Process (BP)microtubule-based movement0.00001980.0002436Highly InformativeDirect
Biological Process (BP)serine family amino acid metabolic process0.00011350.00005389Highly InformativeDirect
Molecular Function (MF)transferase activity0.0000021590.00000000000003224Least InformativeDirect
Molecular Function (MF)lyase activity0.030860.08741Moderately InformativeInherited
Molecular Function (MF)transferase activity, transferring acyl groups00InformativeDirect
Molecular Function (MF)hydro-lyase activity0.0000021510.0000009144InformativeDirect
Molecular Function (MF)O-acyltransferase activity0.000021330.00001694Highly InformativeDirect
Molecular Function (MF)carbonate dehydratase activity0.00010870.000001105Highly InformativeDirect
Molecular Function (MF)acetyltransferase activity0.0027560.01425Highly InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle11Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.80180.07789Least InformativeInherited
Cellular Component (CC)protein complex0.0065010.00006577Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.018370.9894Least InformativeInherited
Cellular Component (CC)membrane0.95211Least InformativeInherited
Cellular Component (CC)non-membrane-bounded organelle0.0038520.7112Least InformativeInherited
Cellular Component (CC)mitochondrial protein complex0.0055360.002849Moderately InformativeInherited
Cellular Component (CC)mitochondrial envelope0.10350.05387Moderately InformativeInherited
Cellular Component (CC)organelle inner membrane0.0072690.005357Moderately InformativeInherited
Cellular Component (CC)cytoskeleton0.00000067760.006611Moderately InformativeInherited
Cellular Component (CC)membrane protein complex0.16090.151Moderately InformativeInherited
Cellular Component (CC)microtubule cytoskeleton0.000000002770.000046InformativeDirect
Cellular Component (CC)mitochondrial respiratory chain0.000022060.000002692InformativeDirect
Cellular Component (CC)oxidoreductase complex0.000054160.0000771InformativeDirect
Cellular Component (CC)inner mitochondrial membrane protein complex0.00024850.00004187InformativeDirect
Cellular Component (CC)actin cytoskeleton0.0014580.003513InformativeInherited
Cellular Component (CC)respiratory chain complex0.0012930.0002284InformativeInherited
Cellular Component (CC)mitochondrial respiratory chain complex I0.00000019630.00000003525Highly InformativeDirect

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 0.000000000545 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.000008709 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.1951 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.8643 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.0001718 Moderately Informative Direct
Biological Process (BP) carbohydrate metabolic process 0.00000000004856 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.000005797 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.0002041 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.02611 Moderately Informative Inherited
Biological Process (BP) protein complex biogenesis 0.001021 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 0.2554 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.1888 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.03259 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.9108 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.6164 Moderately Informative Inherited
Biological Process (BP) sulfur compound metabolic process 0.002445 Moderately Informative Inherited
Biological Process (BP) organophosphate biosynthetic process 0.4682 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.6758 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) peptide metabolic process 0.002868 Moderately Informative Inherited
Biological Process (BP) amide biosynthetic process 0.00391 Moderately Informative Inherited
Biological Process (BP) gene expression 0.5988 Moderately Informative Inherited
Biological Process (BP) generation of precursor metabolites and energy 0.1004 Moderately Informative Inherited
Biological Process (BP) oxidation-reduction process 0.5089 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 0.07298 Moderately Informative Inherited
Biological Process (BP) protein oligomerization 0.000004781 Informative Direct
Biological Process (BP) cellular metabolic compound salvage 0.00001114 Informative Direct
Biological Process (BP) liposaccharide metabolic process 0.000000001806 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.00008722 Informative Direct
Biological Process (BP) carbohydrate biosynthetic process 0.0000000000005225 Informative Direct
Biological Process (BP) polysaccharide metabolic process 0.0000000000002664 Informative Direct
Biological Process (BP) cellular carbohydrate metabolic process 0.00000001235 Informative Direct
Biological Process (BP) membrane lipid metabolic process 0.0004545 Informative Direct
Biological Process (BP) phospholipid metabolic process 0.0005454 Informative Direct
Biological Process (BP) reproductive system development 0.0009853 Informative Direct
Biological Process (BP) central nervous system development 0.1707 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.05594 Informative Inherited
Biological Process (BP) cell development 0.9858 Informative Inherited
Biological Process (BP) microtubule-based process 0.009883 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.7556 Informative Inherited
Biological Process (BP) regulation of cellular amide metabolic process 0.001535 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 0.002917 Informative Inherited
Biological Process (BP) sulfur compound biosynthetic process 0.01957 Informative Inherited
Biological Process (BP) protein homotrimerization 0.00000431 Highly Informative Direct
Biological Process (BP) microtubule-based movement 0.0002436 Highly Informative Direct
Biological Process (BP) serine family amino acid metabolic process 0.00005389 Highly Informative Direct
Biological Process (BP) lipid A metabolic process 0.0000000000006208 Highly Informative Direct
Biological Process (BP) cellular polysaccharide biosynthetic process 0.00000000009661 Highly Informative Direct
Biological Process (BP) translational initiation 0.0000004785 Highly Informative Direct
Biological Process (BP) energy reserve metabolic process 0.0000007311 Highly Informative Direct
Biological Process (BP) glycolipid biosynthetic process 0.00004024 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 0.0001805 Highly Informative Direct
Biological Process (BP) gliogenesis 0.0002034 Highly Informative Direct
Biological Process (BP) response to drug 0.0006816 Highly Informative Direct
Biological Process (BP) oligosaccharide biosynthetic process 0.08261 Highly Informative Inherited
Molecular Function (MF) transferase activity 0.00000000000003224 Least Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) lyase activity 0.08741 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding 0.5054 Moderately Informative Inherited
Molecular Function (MF) molecular function regulator 0.01457 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring acyl groups 0 Informative Direct
Molecular Function (MF) hydro-lyase activity 0.0000009144 Informative Direct
Molecular Function (MF) nucleotidyltransferase activity 0 Informative Direct
Molecular Function (MF) RNA binding 0.003714 Informative Inherited
Molecular Function (MF) O-acyltransferase activity 0.00001694 Highly Informative Direct
Molecular Function (MF) carbonate dehydratase activity 0.000001105 Highly Informative Direct
Molecular Function (MF) translation factor activity, RNA binding 0.000000001394 Highly Informative Direct
Molecular Function (MF) guanyl-nucleotide exchange factor activity 0.000000177 Highly Informative Direct
Molecular Function (MF) acetyltransferase activity 0.01425 Highly Informative Inherited
Cellular Component (CC) protein complex 0.00006577 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.07789 Least Informative Inherited
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.9894 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.7112 Least Informative Inherited
Cellular Component (CC) mitochondrial protein complex 0.002849 Moderately Informative Inherited
Cellular Component (CC) mitochondrial envelope 0.05387 Moderately Informative Inherited
Cellular Component (CC) organelle inner membrane 0.005357 Moderately Informative Inherited
Cellular Component (CC) cytoskeleton 0.006611 Moderately Informative Inherited
Cellular Component (CC) membrane protein complex 0.151 Moderately Informative Inherited
Cellular Component (CC) microtubule cytoskeleton 0.000046 Informative Direct
Cellular Component (CC) mitochondrial respiratory chain 0.000002692 Informative Direct
Cellular Component (CC) oxidoreductase complex 0.0000771 Informative Direct
Cellular Component (CC) inner mitochondrial membrane protein complex 0.00004187 Informative Direct
Cellular Component (CC) respiratory chain complex 0.0002284 Informative Direct
Cellular Component (CC) actin cytoskeleton 0.003513 Informative Inherited
Cellular Component (CC) mitochondrial respiratory chain complex I 0.00000003525 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Nucleotidyltransferases0Least InformativeDirect
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0Moderately InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processLipid metabolism0Moderately InformativeDirect
Biological processCarbohydrate metabolism0Moderately InformativeDirect
Biological processAmino-acid biosynthesis0Moderately InformativeDirect
Biological processLipid biosynthesis0InformativeDirect
Biological processCell shape0InformativeDirect
Biological processCell wall biogenesis/degradation0InformativeDirect
Biological processPeptidoglycan synthesis0Highly InformativeDirect
Biological processLysine biosynthesis0Highly InformativeDirect
Biological processLipid A biosynthesis0Highly InformativeDirect
Biological processDiaminopimelate biosynthesis0Highly InformativeDirect
Biological processCysteine biosynthesis0.000000558Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentPlastid1Moderately InformativeInherited
Cellular componentKinetochore0.0000008421Highly InformativeDirect
Cellular componentCentromere0.00005082Highly InformativeDirect
DomainRepeat0Least InformativeDirect
Molecular functionMagnesium0Least InformativeDirect
Molecular functionMetal-binding0.000000000002579Least InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationNucleotidyltransferase0Moderately InformativeDirect
Post-translational modificationAcyltransferase0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR011004 SSF51161 Protein matches
Abstract

This domain is characterised by trimeric LpxA-like enzymes that display a single-stranded left-handed beta-helix fold, composed of tandem repeats of a hexapeptide, as represented by the Bacterial transferase hexapeptide repeat, where the hexapeptide repeats correspond to individual strands. Many bacterial transferases contain this domain. The structures of several proteins with this domain have been determined, including UDP N-acetylglucosamine acyltransferase (LpxA, ) from Escherichia coli, the first enzyme in the lipid A biosynthetic pathway [PubMed7481807]; galactoside acetyltransferase (GAT, LacA, ) from E. coli, a gene product of the lac operon that may assist cellular detoxification [PubMed11937062]; gamma-class Archaeon carbonic anhydrase , a zinc-containing enzyme that catalyses the reversible hydration of carbon dioxide [PubMed10924115]; tetrahydrodipicolinate-N-succinlytransferase (DapD) from Mycobacterium bovis, an enzyme from the lysine biosynthetic pathway that contains an extra N-terminal 3-helical domain [PubMed11910040]; and the C-terminal domain of N-acetylglucosamine 1-phosphate uridyltransferase (GlmU, ) from E. coli, a trimeric bifunctional enzyme that catalyses the last two sequential reactions in the de novo biosynthetic pathway for UDP-N-acetylglucosamine, an essential precursor for many biomolecules [PubMed11329257].


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 Trimeric LpxA-like enzymes 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 Trimeric LpxA-like enzymes 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 ]